CaOutputShell

Python 2.7.3 |EPD 7.3-1 (32-bit)| (default, Apr 12 2012, 11:28:34) 
[GCC 4.0.1 (Apple Inc. build 5493)] on darwin
Type "copyright", "credits" or "license()" for more information.
>>> ================================ RESTART ================================
>>> 
List of PDB-IDs read from file:  /Users/xji3/modifiedClemensCode/modifiedClemensCode/input/init_pdbids.txt
Found number of initial PDB entries: 1391

List of membrane proteins read from file:  /Users/xji3/modifiedClemensCode/modifiedClemensCode/input/init_mpids.txt
Found number of membrane protein IDs: 622

The list of PDB-IDs contains 3 membrane proteins:
	3MT5
	1P49
	2RH1

=====| 3 PDB-IDs removed; 1388 remaining. |=====

List of monomeric proteins read from file:  /Users/xji3/modifiedClemensCode/modifiedClemensCode/input/monomers.txt
Found number of (probably) monomeric-protein IDs: 894

The list of PDB-IDs contains 894 monomeric proteins:
=====| 494 PDB-IDs removed; 894 remaining. |=====

PDB IDs with more than one chain:
	3RW7 (4) 3BFX (2) 1KMT (2) 3AU5 (2) 2A01 (3) 3QLN (2) 2NZI (2) 1JQE (2) 3H63 (2) 3P1X (2) 3K77 (8) 3FY1 (2) 3EHR (2) 1UPL (2) 2IYK (2) 2V77 (2) 2V76 (4) 2OB0 (3) 3O33 (4) 3EAP (4) 3SHT (3) 2HHL (4) 2W7A (2) 2WO1 (2) 3ORH (4) 2IQJ (2) 2XRC (4) 1L8R (2) 2QK4 (2) 2X4F (2) 3CXB (2) 2F4W (2) 1XCR (2) 3FK2 (4) 2ZFU (2) 3R27 (2) 3DKB (6) 4ELL (2) 1TR2 (2) 2ZOT (4) 3LLP (2) 3LJW (2) 3OP5 (4) 2ADO (2) 3OP8 (2) 2VXP (2) 3GIX (2) 3LQ9 (2) 3GAX (2) 2QKQ (2) 2O2T (2) 3NFY (2) 3MCF (2) 3QIJ (2) 2QJZ (2) 2F8Y (2) 1FPZ (6) 3D3M (2) 2VJ2 (2) 3FG7 (2) 3G5C (2) 3KS9 (2) 3LF5 (2) 2A38 (3) 2J3S (2) 1H6G (2) 1ATZ (2) 3C5N (2) 3NXU (2) 3QYE (2) 3BQ7 (6) 3EP0 (2) 3EPZ (2) 2C46 (4) 2D0T (2) 3QXL (2) 3NMW (2) 1TH0 (2) 3PRY (3) 3UOM (6) 1SNZ (2) 3AJ4 (2) 1G8I (2) 3FM8 (4) 3HIL (2) 3L4C (2) 1ZR3 (4) 1VHR (2) 1UG3 (2) 2QS9 (2) 2C0M (4) 2Y1M (6) 1I1J (2) 3SD4 (2) 3DAD (2) 3CEG (2) 2GGT (2) 2IBN (2) 1IJQ (2) 1KWM (2) 2P8E (2) 3FZH (2) 2XES (2) 1K0M (2) 3U9H (2) 2H8L (3) 2AG4 (2) 2D4H (2) 3T5G (2) 3ANS (2) 2VYI (2) 2XB1 (2) 1UUH (2) 3BVO (2) 3PT3 (2) 1WAO (4) 3PE0 (2) 2H3L (2) 3EAE (2) 1NUG (2) 3BHD (2) 2R8U (2) 2Z15 (4) 3LLH (2) 2Z80 (2) 3BCZ (4) 3IUG (2) 2FH1 (3) 4AAP (2) 3RK6 (2) 3IU1 (2) 3QE2 (2) 3S7R (2) 3LUC (3) 3D2Q (4) 3EQ5 (12) 3HBW (2) 2GGZ (2) 2B4Y (4) 2QQO (2) 3Q93 (2) 2W50 (2) 2QQR (2) 3R6N (2) 3FSO (2) 3B6H (2) 3F7Q (2) 1NCN (2) 3LS8 (2) 3D59 (2) 2FDV (4) 3N5N (2) 3GEB (4) 3FB2 (2) 2B3Y (2) 2V9S (4) 3PFS (2) 3A77 (4) 3SHU (2) 2ZOU (2) 4DJX (2) 3SEI (2) 3V34 (2) 3V33 (2) 2CLT (2) 2Z66 (4) 3KGR (3) 3P23 (4) 3V3L (2) 3ECR (2) 1Z6T (4) 2PMV (4) 1H7S (2) 3B5H (4) 2JGN (3) 2HWY (2) 1JR2 (2) 1OLM (3) 2FAP (2) 2PSO (3) 2VZC (2) 2Y4T (3) 3QVE (3) 2JE0 (6) 3K65 (2) 3KJD (2) 3EVI (2) 3BGV (4) 1RXD (3) 2DDF (2) 3I6C (2) 2GK6 (2) 2NYU (2) 4APC (2) 3RFE (2) 2Q4Q (2) 1DTJ (4) 3M03 (3) 1N45 (2) 1WLZ (4) 3QJ4 (2) 3PD7 (2) 3NEY (6) 2WY8 (2) 1BNL (4) 3V98 (2) 2SHP (2) 1WKU (2) 3QKD (2) 3ZR0 (2) 4ACR (4) 2BBS (2) 3MTS (3) 4DEQ (2) 3IQ2 (2) 3I3C (4) 3QOR (5) 1T77 (4) 2NT0 (4) 3QF2 (2) 3SLA (5) 2F37 (2) 2RGZ (2) 3G07 (6) 3CPF (2) 2NTE (2) 2QY7 (3) 1YYH (2) 2WFT (2) 1ELK (2) 3UV4 (2) 2QFZ (2) 3HYG (2) 2QFD (10) 3OZ1 (4) 3UD1 (3) 3OAI (2) 3G4G (4) 3G4E (2) 2Y5C (2) 3FDW (2) 1IU1 (2) 1XQR (2) 3HWN (4) 3GQQ (6) 3K9P (2) 2OXC (2) 3JUE (2) 2AEW (2) 1ZBU (4) 3NO8 (2) 3PG7 (2) 2I9A (4) 3IEI (8) 3U9J (2) 2VPI (2) 3LLK (3) 
Total: 257 (of 894 remaining PDB IDs)
Of these, the following PDB entries have non-unique chains:
	3CXB
	3FM8
	3FZH
	3T5G
	1OLM
	2FAP
	3K65
	2WY8
	3K9P
=====| 9 PDB-IDs removed; 885 remaining. |=====

Non-unique UniProt mapping found for:
	2I75: ['Q4ZG31', 'P29074']
	2I9A: ['P00749', 'Q5PY49']
	2II0: ['Q59GG9', 'Q07889']
	2NYU: ['Q9UI43', 'Q1WWK4']
	2ODP: ['P06681', 'Q53HP3']
	2OK5: ['Q53F89', 'P00751']
	2VGQ: ['P0AEX9', 'Q7Z434']
	2WKQ: ['O49003', 'P63000']
	2XB1: ['Q86UU0', 'Q9BRQ0']
	2YCU: ['Q7Z406', 'P05095']
	2ZKM: ['Q00722', 'Q59F77']
	3A1B: ['P68431', 'Q9Y6K1']
	3MTS: ['Q43463', 'O43463']
	3N94: ['P0AEX9', 'P41586']
	3O3U: ['P0AEX9', 'Q15109']
	3OAI: ['P0AEX9', 'P25189']
	3OV6: ['P29017', 'P29016', 'P61769']
	3PY7: ['P49023', 'P0AEX9', 'P06931']
	3Q27: ['P37840', 'P0AEX9']
	3Q3F: ['P0CG48', 'P00648']
	4DEQ: ['P15692', 'O14786']
Multiple GeneIDs found for (PDB-ID: UniProt-ID: [ 'GeneIDs' ]):
	1HZF:
		P0C0L4: ['720', '721']
	1MHN:
		Q16637: ['6606', '6607']
	2XB1:
		Q86UU0: ['283149']
		Q9BRQ0: ['90780']
	2XUB:
		Q9BUI4: ['101060460', '10623']
	3A1B:
		P68431: ['8350', '8351', '8352', '8353', '8354', '8355', '8356', '8357', '8358', '8968']
		Q9Y6K1: ['1788']
	3OV6:
		P29017: ['911']
		P29016: ['910']
		P61769: ['567']
	4DEQ:
		P15692: ['7422']
		O14786: ['8829']
No Uniprot-ID found for PDB-ID:
	1X9Q
	2VFK
	2YB3
	3H6L
	3L00
=====| 5 PDB-IDs removed; 880 remaining. |=====

No GeneID found for PDB-ID:
	3Q3F
	1EH6
	3DJ9
	2V3Q
	1P9A
	2W7A
	1I71
	2OJR
=====| 8 PDB-IDs removed; 872 remaining. |=====

1539 of unique CCDS-IDs mapped to 872 PDB-IDs.
Of these, 1472 sequences found in CCDS protein fasta file.
CCDS sequences not found for CCDS-IDs:
	CCDS7116.1 CCDS6123.1 CCDS2860.1 CCDS7118.1 CCDS6821.1 CCDS47314.1 CCDS7117.1 CCDS3714.1 CCDS6028.1 CCDS7912.1 CCDS44941.1 CCDS6921.1 CCDS17.1 CCDS58650.1 CCDS46511.1 CCDS7115.1 CCDS43887.1 CCDS4707.1 CCDS4741.1 CCDS32933.1 CCDS13068.1 CCDS12234.1 CCDS13069.1 CCDS859.1 CCDS45426.1 CCDS3035.1 CCDS44939.1 CCDS14229.1 CCDS32932.1 CCDS42304.1 CCDS9351.1 CCDS47320.1 CCDS44231.1 CCDS14620.1 CCDS45427.1 CCDS14228.1 CCDS6923.1 CCDS7119.1 CCDS2859.1 CCDS45428.1 CCDS42887.1 CCDS45248.1 CCDS6819.1 CCDS56327.1 CCDS45425.1 CCDS31587.1 CCDS53663.1 CCDS41840.1 CCDS56079.1 CCDS6922.1 CCDS6973.1 CCDS43549.1 CCDS14230.1 CCDS6531.1 CCDS56328.1 CCDS1130.1 CCDS14255.1 CCDS43214.1 CCDS44232.1 CCDS47957.1 CCDS6820.1 CCDS44129.1 CCDS33287.1 CCDS1641.1 CCDS32934.1 CCDS46003.1 CCDS6027.1
No CCDS-ID or CCDS sequence found for PDB-ID:
	1Y93
	2HAZ
	2PB7
	2ZOT
	2ZOU
	3BI7
	3DB4
	3FL2
	3GG6
	3L4C
=====| 10 PDB-IDs removed; 862 remaining. |=====


Constructing all local pairwise PDB:CCDS amino acid Alignments (using the program 'water' from the EMBOSS tools).
Recording longest ungapped segment of alignment and its percent identity, as well as all mismatches & gaps in the entire local alignment.

Trying to download PDB files from ftp.wwpdb.org
230 Any password will work
	3PZ7
Closing FTP connection.
PDB: 4A14 Using chain: A
Using Ca-Ca distance criterion
PDB: 2Y9U Using chain: A
Using Ca-Ca distance criterion
PDB: 3N94 Using chain: A
Using Ca-Ca distance criterion
PDB: 1YZM Using chain: A
Using Ca-Ca distance criterion
PDB: 3S98 Using chain: A
Using Ca-Ca distance criterion
PDB: 3OBS Using chain: A
Using Ca-Ca distance criterion
PDB: 2NQC Using chain: A
Using Ca-Ca distance criterion
PDB: 3K7I Using chain: B
Using Ca-Ca distance criterion
PDB: 3RW7
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7276.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7278.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7280.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7281.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2CKK Using chain: A
Using Ca-Ca distance criterion
PDB: 2HZQ Using chain: A
Using Ca-Ca distance criterion
PDB: 1FMK Using chain: A
Using Ca-Ca distance criterion
PDB: 3BFX
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4782.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5140.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1SBX Using chain: A
Using Ca-Ca distance criterion
PDB: 1KMV Using chain: A
Using Ca-Ca distance criterion
PDB: 1KMT
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7058.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7668.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1EM2 Using chain: A
Using Ca-Ca distance criterion
PDB: 3TEG Using chain: A
Using Ca-Ca distance criterion
PDB: 3AU5
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8415.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8477.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2A01
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6567.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6611.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6677.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6721.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6838.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7028.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3BO5 Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue SAH is an unknown modified amino acid
PDB: 2BZX Using chain: A
Using Ca-Ca distance criterion
PDB: 1MIL Using chain: A
Using Ca-Ca distance criterion
PDB: 3RCQ Using chain: A
Using Ca-Ca distance criterion
PDB: 3V55 Using chain: A
Using Ca-Ca distance criterion
PDB: 2PE4 Using chain: A
Using Ca-Ca distance criterion
PDB: 3QLN
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2445.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2448.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2451.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2624.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3T7L Using chain: A
Using Ca-Ca distance criterion
PDB: 1XM9 Using chain: A
Using Ca-Ca distance criterion
PDB: 2NZI
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5038.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5059.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3NF1 Using chain: A
Using Ca-Ca distance criterion
PDB: 3IAR Using chain: A
Using Ca-Ca distance criterion
PDB: 2WJY Using chain: A
Using Ca-Ca distance criterion
PDB: 1W6K Using chain: A
Using Ca-Ca distance criterion
PDB: 3U74 Using chain: U
Using Ca-Ca distance criterion
PDB: 2XU3 Using chain: A
Using Ca-Ca distance criterion
PDB: 1XMK Using chain: A
Using Ca-Ca distance criterion
PDB: 3MB3 Using chain: A
Using Ca-Ca distance criterion
PDB: 2D7I Using chain: A
Using Ca-Ca distance criterion
PDB: 1JQE
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4844.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4898.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Atom.py", line 99
    warnings.warn(msg, PDBConstructionWarning)
PDBConstructionWarning: Could not assign element 'UNK' for Atom (name=UNK) with given element 'X'

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4931.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5157.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3H63
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10781.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 10845.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10909.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 11841.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2EC8 Using chain: A
Using Ca-Ca distance criterion
PDB: 3BWY Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue SAM is an unknown modified amino acid
PDB: 2PET Using chain: A
Using Ca-Ca distance criterion
PDB: 3Q6L Using chain: A
Using Ca-Ca distance criterion
PDB: 1BIK Using chain: A
Using Ca-Ca distance criterion
PDB: 3P1X
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 1394.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 1488.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3PUA Using chain: A
Using Ca-Ca distance criterion
PDB: 3A1B Using chain: A
Using Ca-Ca distance criterion
PDB: 3A1A Using chain: A
Using Ca-Ca distance criterion
PDB: 1GGZ Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue  CA is an unknown modified amino acid
PDB: 3K77
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 20590.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 20604.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 20624.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 20642.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 20663.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 20672.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain G is discontinuous at line 20685.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain H is discontinuous at line 20695.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2WA0 Using chain: A
Using Ca-Ca distance criterion
PDB: 3FY1
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6566.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6917.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2ODV Using chain: A
Using Ca-Ca distance criterion
PDB: 2NQ3 Using chain: A
Using Ca-Ca distance criterion
PDB: 3H8Z Using chain: A
Using Ca-Ca distance criterion
PDB: 2X5Y Using chain: A
Using Ca-Ca distance criterion
PDB: 3EHR
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3250.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3429.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1WDY Using chain: A
Using Ca-Ca distance criterion
PDB: 3KQ0 Using chain: A
Using Ca-Ca distance criterion
PDB: 2XY1 Using chain: A
Using Ca-Ca distance criterion
PDB: 1LN1 Using chain: A
Using Ca-Ca distance criterion
PDB: 3GLK Using chain: A
Using Ca-Ca distance criterion
PDB: 1UPL
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6032.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6040.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2I53 Using chain: A
Using Ca-Ca distance criterion
PDB: 3L5K Using chain: A
Using Ca-Ca distance criterion
PDB: 3MPX Using chain: A
Using Ca-Ca distance criterion
PDB: 2ERF Using chain: A
Using Ca-Ca distance criterion
PDB: 2ZB4 Using chain: A
Using Ca-Ca distance criterion
PDB: 2V77
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5473.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5524.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5560.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5937.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2V76
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7054.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7092.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7142.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7164.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7194.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7394.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7606.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7796.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2OUD Using chain: A
Using Ca-Ca distance criterion
PDB: 2OB0
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8991.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9042.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9093.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9144.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9258.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9346.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2IGP Using chain: A
Using Ca-Ca distance criterion
PDB: 2QQ8 Using chain: A
Using Ca-Ca distance criterion
PDB: 3O33
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6358.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6360.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6362.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 6364.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6366.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6416.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6485.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 6559.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1WAR Using chain: A
Using Ca-Ca distance criterion
PDB: 1O3X Using chain: A
Using Ca-Ca distance criterion
PDB: 3UEM Using chain: A
Using Ca-Ca distance criterion
PDB: 3EAP
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7468.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7469.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7473.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7474.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7484.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7503.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7518.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3SHT
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4888.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5044.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 5202.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2WWE Using chain: A
Using Ca-Ca distance criterion
PDB: 2HHL
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6447.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6500.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 6552.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6605.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6707.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6848.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 6986.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3O3U Using chain: N
Using Ca-Ca distance criterion
PDB: 2FBY Using chain: A
Using Ca-Ca distance criterion
PDB: 2PPN Using chain: A
Using Ca-Ca distance criterion
PDB: 2PPL Using chain: A
Using Ca-Ca distance criterion
There is no match of this fragment in the pdb AA sequence XX
PDB: 1R2D Using chain: A
Using Ca-Ca distance criterion
PDB: 1GQV Using chain: A
Using Ca-Ca distance criterion
PDB: 2VM5 Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZT3 Using chain: A
Using Ca-Ca distance criterion
PDB: 2YU1 Using chain: A
Using Ca-Ca distance criterion
PDB: 1L8J Using chain: A
Using Ca-Ca distance criterion
PDB: 2IQC Using chain: A
Using Ca-Ca distance criterion
PDB: 2XRI Using chain: A
Using Ca-Ca distance criterion
PDB: 3OLH Using chain: A
Using Ca-Ca distance criterion
PDB: 2WO1
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3516.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3528.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3536.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3689.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3ORH
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7814.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7840.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7866.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7892.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7918.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8144.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 8435.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 8644.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2IQJ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2411.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2417.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2422.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2447.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3OLC Using chain: X
Using Ca-Ca distance criterion
PDB: 2XRC
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 16237.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 16323.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 16409.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 16481.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2H14 Using chain: A
Using Ca-Ca distance criterion
PDB: 3BPT Using chain: A
Using Ca-Ca distance criterion
PDB: 1L8R
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 1876.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 1963.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2I5F Using chain: A
Using Ca-Ca distance criterion
PDB: 2QK4
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7082.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7131.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7180.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7229.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2HC1 Using chain: A
Using Ca-Ca distance criterion
PDB: 3AHQ Using chain: A
Using Ca-Ca distance criterion
PDB: 1DXS Using chain: A
Using Ca-Ca distance criterion
PDB: 3UMS Using chain: A
Using Ca-Ca distance criterion
PDB: 1IMJ Using chain: A
Using Ca-Ca distance criterion
PDB: 2Q8K Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZZK Using chain: A
Using Ca-Ca distance criterion
PDB: 3LJU Using chain: X
Using Ca-Ca distance criterion
PDB: 2WEF Using chain: A
Using Ca-Ca distance criterion
PDB: 2X4F
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5806.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5858.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5885.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6005.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3FUN Using chain: A
Using Ca-Ca distance criterion
PDB: 2QK0 Using chain: A
Using Ca-Ca distance criterion
PDB: 2OBI Using chain: A
Using Ca-Ca distance criterion
PDB: 2OVJ Using chain: A
Using Ca-Ca distance criterion
PDB: 2OBD Using chain: A
Using Ca-Ca distance criterion
PDB: 1NST Using chain: A
Using Ca-Ca distance criterion
PDB: 2ICC Using chain: A
Using Ca-Ca distance criterion
PDB: 2QNK Using chain: A
Using Ca-Ca distance criterion
PDB: 2F4W
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2919.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3031.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZS9 Using chain: A
Using Ca-Ca distance criterion
PDB: 2BZG Using chain: A
Using Ca-Ca distance criterion
PDB: 3E7E Using chain: A
Using Ca-Ca distance criterion
PDB: 3Q2U Using chain: A
Using Ca-Ca distance criterion
PDB: 1XCR
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5490.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5495.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5500.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5626.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2FMA Using chain: A
Using Ca-Ca distance criterion
PDB: 3EGN Using chain: A
Using Ca-Ca distance criterion
PDB: 3FK2
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7022.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7023.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7024.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7025.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7026.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7027.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7029.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2ZFU
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3755.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3781.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3807.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3974.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3PB6 Using chain: X
Using Ca-Ca distance criterion
PDB: 3R27
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2993.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3017.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3053.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3092.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3Q2E Using chain: A
Using Ca-Ca distance criterion
PDB: 2JLL Using chain: A
Using Ca-Ca distance criterion
PDB: 4DOU Using chain: A
Using Ca-Ca distance criterion
I don't know where to place this fragment. It appears >= 2x in the structure.
It will be ignored in the distance matrix: AYVYRSAFSVGLETYVT
I don't know where to place this fragment. It appears >= 2x in the structure.
It will be ignored in the distance matrix: MPIRFTKIFYNQQNHYDGSTGKFHCNIPGLYYFAYHITVYMKDVKVSLFKKDKAMLFTYDQYQENNVDQASGSVLLHLEVGDQVWLQVY
I don't know where to place this fragment. It appears >= 2x in the structure.
It will be ignored in the distance matrix: ERNGLYADNDNDSTFTGFLLYHDTNPGEGAYVYRSAFSVGLE
I don't know where to place this fragment. It appears >= 2x in the structure.
It will be ignored in the distance matrix: MPIRFTKIFYNQQNHYDGSTGKFHCNIPGLYYFAYHITVYMKDVKVSLFKKDKAMLFTYDQYQENNVDQASGSVLLHLEVGDQVWLQVYGEGERNGLYADNDNDSTFTGFLLYHDTNP
I don't know where to place this fragment. It appears >= 2x in the structure.
It will be ignored in the distance matrix: YVYRSAFSVGLETY
I don't know where to place this fragment. It appears >= 2x in the structure.
It will be ignored in the distance matrix: IPNMPIRFTKIFYNQQNHYDGSTGKFHCNIPGLYYFAYHITVYMKDVKVSLFKKDKAMLFTYDQYQENNVDQASGSVLLHLEVGDQVWLQVYGEGERNGLYADNDNDSTFTGFLLYHDT
PDB: 1XQR
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4743.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4819.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3PBH Using chain: A
Using Ca-Ca distance criterion
PDB: 1B6A Using chain: A
Using Ca-Ca distance criterion
PDB: 3UI4 Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZSQ Using chain: A
Using Ca-Ca distance criterion
PDB: 2WKQ Using chain: A
Using Ca-Ca distance criterion
PDB: 3DKB Using chain: A
Using Ca-Ca distance criterion
PDB: 3VHV Using chain: A
Using Ca-Ca distance criterion
PDB: 4ELL
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6209.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6308.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3FIA Using chain: A
Using Ca-Ca distance criterion
PDB: 3NBI Using chain: A
Using Ca-Ca distance criterion
PDB: 1BD8 Using chain: A
Using Ca-Ca distance criterion
PDB: 2CG7 Using chain: A
Using Ca-Ca distance criterion
PDB: 3DKM Using chain: A
Using Ca-Ca distance criterion
PDB: 3BJ5 Using chain: A
Using Ca-Ca distance criterion
PDB: 1D3G Using chain: A
Using Ca-Ca distance criterion
PDB: 2XIO Using chain: A
Using Ca-Ca distance criterion
PDB: 1TR2
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 17013.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 17121.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2WNG Using chain: A
Using Ca-Ca distance criterion
PDB: 3L4H Using chain: A
Using Ca-Ca distance criterion
PDB: 2IC1 Using chain: A
Using Ca-Ca distance criterion
PDB: 3LLP
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8205.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8227.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8274.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8596.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2DHO Using chain: A
Using Ca-Ca distance criterion
PDB: 2WNP Using chain: F
Using Ca-Ca distance criterion
PDB: 3LJW
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2206.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2210.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2215.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2549.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3NHN Using chain: A
Using Ca-Ca distance criterion
PDB: 3FRR Using chain: A
Using Ca-Ca distance criterion
PDB: 1MJ4 Using chain: A
Using Ca-Ca distance criterion
PDB: 3OP5
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 20650.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 20685.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 20720.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 20757.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 20782.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 21012.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 21255.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 21477.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2ADO
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3354.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3474.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1M6I Using chain: A
Using Ca-Ca distance criterion
PDB: 3OP8
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3011.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3021.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3031.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3087.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1BZ4 Using chain: A
Using Ca-Ca distance criterion
PDB: 2V4U Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue CYD is an unknown modified amino acid
There is no match of this fragment in the pdb AA sequence MKICSIALVGKYTKLRDCYASVFKALEHSALAINHKLNLMYIDSIDLEKITETEDPVKFHEAWQKLCKADGILVPGGFGIRGTLGKLQAISWARTKKIPFLGVXLGMQLAVIEFARNCLNLKDADSTEFRPNAPVPLVIDMPEHNPGNLGGTMRLGIRRTVFKTENSILRKLYGDVPFIEERHRHRFEVNPNLIKQFEQNDLSFVGQDVDGDRMEIIELANHPYFVGVQFHPEFSSRPMKPSPPYLGLLLAATGNLNAYLQQGCKLS
PDB: 1K1B Using chain: A
Using Ca-Ca distance criterion
PDB: 1IJB Using chain: A
Using Ca-Ca distance criterion
PDB: 1S1E Using chain: A
Using Ca-Ca distance criterion
PDB: 1F42 Using chain: A
Using Ca-Ca distance criterion
PDB: 4D8O Using chain: A
Using Ca-Ca distance criterion
PDB: 2VXP
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2376.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2393.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3S0K Using chain: A
Using Ca-Ca distance criterion
PDB: 3CH4 Using chain: B
Using Ca-Ca distance criterion
PDB: 2GEE Using chain: A
Using Ca-Ca distance criterion
PDB: 3GIX
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5343.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5947.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2H2T Using chain: B
Using Ca-Ca distance criterion
PDB: 3MHD Using chain: D
Using Ca-Ca distance criterion
PDB: 3L1X Using chain: A
Using Ca-Ca distance criterion
PDB: 3LQ9
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2310.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2425.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2IJA Using chain: A
Using Ca-Ca distance criterion
PDB: 3LQH Using chain: A
Using Ca-Ca distance criterion
PDB: 3UWT Using chain: A
Using Ca-Ca distance criterion
PDB: 3GAX
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2560.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2648.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1R6J Using chain: A
Using Ca-Ca distance criterion
PDB: 2OIT Using chain: A
Using Ca-Ca distance criterion
PDB: 1LCF Using chain: A
Using Ca-Ca distance criterion
PDB: 3R9M Using chain: A
Using Ca-Ca distance criterion
PDB: 2QKQ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2538.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2539.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2540.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2554.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3L11 Using chain: A
Using Ca-Ca distance criterion
PDB: 2O2T
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2092.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2103.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2P0D Using chain: A
Using Ca-Ca distance criterion
PDB: 1MJS Using chain: A
Using Ca-Ca distance criterion
PDB: 2QXI Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue K7J is an unknown modified amino acid
PDB: 1SMB Using chain: A
Using Ca-Ca distance criterion
PDB: 1M61 Using chain: A
Using Ca-Ca distance criterion
PDB: 2IMG Using chain: A
Using Ca-Ca distance criterion
PDB: 1I1N Using chain: A
Using Ca-Ca distance criterion
PDB: 3NFY
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4587.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5083.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3MCF
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2484.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2497.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2516.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2623.
 Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue FLC is an unknown modified amino acid
PDB: 3QIJ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9197.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9207.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9216.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9412.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZA4 Using chain: A
Using Ca-Ca distance criterion
PDB: 3E9V Using chain: A
Using Ca-Ca distance criterion
PDB: 1B1C Using chain: A
Using Ca-Ca distance criterion
PDB: 2QJZ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4345.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4649.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3KZD Using chain: A
Using Ca-Ca distance criterion
PDB: 2F8Y
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3717.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3921.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3RJD Using chain: A
Using Ca-Ca distance criterion
PDB: 1W24 Using chain: A
Using Ca-Ca distance criterion
PDB: 3AVS Using chain: A
Using Ca-Ca distance criterion
PDB: 2JA4 Using chain: A
Using Ca-Ca distance criterion
PDB: 1UMK Using chain: A
Using Ca-Ca distance criterion
PDB: 1FPZ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9281.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9286.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9291.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 9296.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 9301.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 9306.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9311.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9403.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9502.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 9635.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 9751.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 9906.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3II7 Using chain: A
Using Ca-Ca distance criterion
PDB: 2YCU Using chain: A
Using Ca-Ca distance criterion
PDB: 1XGW Using chain: A
Using Ca-Ca distance criterion
PDB: 3LFM Using chain: A
Using Ca-Ca distance criterion
PDB: 3D3M
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3091.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3128.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2VJ2
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2758.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2854.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3S6W Using chain: A
Using Ca-Ca distance criterion
PDB: 3M66 Using chain: A
Using Ca-Ca distance criterion
PDB: 3APA Using chain: A
Using Ca-Ca distance criterion
PDB: 3N8I Using chain: A
Using Ca-Ca distance criterion
PDB: 3FG7
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4632.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4788.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2GRY Using chain: A
Using Ca-Ca distance criterion
PDB: 1NAF Using chain: A
Using Ca-Ca distance criterion
PDB: 2OPW Using chain: A
Using Ca-Ca distance criterion
PDB: 2X6U Using chain: A
Using Ca-Ca distance criterion
PDB: 3G5C
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8366.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8411.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8456.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8634.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2OSA Using chain: A
Using Ca-Ca distance criterion
PDB: 3KS9
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7750.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7805.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7832.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8210.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1RGP Using chain: A
Using Ca-Ca distance criterion
PDB: 3LF5
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3433.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3615.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3797.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3937.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1Z4R Using chain: A
Using Ca-Ca distance criterion
PDB: 2YXF Using chain: A
Using Ca-Ca distance criterion
PDB: 2A38
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4899.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4900.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 4901.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4902.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5061.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 5216.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1SQW Using chain: A
Using Ca-Ca distance criterion
PDB: 2J3S
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4520.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4533.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4552.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4564.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3C5V Using chain: A
Using Ca-Ca distance criterion
PDB: 3IIJ Using chain: A
Using Ca-Ca distance criterion
PDB: 1N6A Using chain: A
Using Ca-Ca distance criterion
PDB: 2JAK Using chain: A
Using Ca-Ca distance criterion
PDB: 3PE6 Using chain: A
Using Ca-Ca distance criterion
PDB: 1HDO Using chain: A
Using Ca-Ca distance criterion
PDB: 2VC8 Using chain: A
Using Ca-Ca distance criterion
PDB: 1H6G
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4328.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4338.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4339.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4523.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1ATZ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3136.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3315.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2G62 Using chain: A
Using Ca-Ca distance criterion
PDB: 2D48 Using chain: A
Using Ca-Ca distance criterion
PDB: 3C5N
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11654.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11678.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11726.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11827.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3C5H Using chain: A
Using Ca-Ca distance criterion
PDB: 3C5K Using chain: A
Using Ca-Ca distance criterion
PDB: 3NZL Using chain: A
Using Ca-Ca distance criterion
PDB: 3ZSJ Using chain: A
Using Ca-Ca distance criterion
PDB: 3NXP Using chain: A
Using Ca-Ca distance criterion
PDB: 3QOW Using chain: A
Using Ca-Ca distance criterion
PDB: 3NXU
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8063.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8172.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8273.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8490.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2II0 Using chain: A
Using Ca-Ca distance criterion
PDB: 3HM5 Using chain: A
Using Ca-Ca distance criterion
PDB: 3QYE
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5778.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6009.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3PUC Using chain: A
Using Ca-Ca distance criterion
PDB: 3E46 Using chain: A
Using Ca-Ca distance criterion
PDB: 3TO8 Using chain: A
Using Ca-Ca distance criterion
PDB: 1R1H Using chain: A
Using Ca-Ca distance criterion
PDB: 1T3Y Using chain: A
Using Ca-Ca distance criterion
PDB: 3RQ4 Using chain: A
Using Ca-Ca distance criterion
PDB: 3MDM Using chain: A
Using Ca-Ca distance criterion
PDB: 3BQ7 Using chain: A
Using Ca-Ca distance criterion
PDB: 1I2T Using chain: A
Using Ca-Ca distance criterion
PDB: 1FAO Using chain: A
Using Ca-Ca distance criterion
PDB: 2CXY Using chain: A
Using Ca-Ca distance criterion
PDB: 1TBF Using chain: A
Using Ca-Ca distance criterion
PDB: 2VUW Using chain: A
Using Ca-Ca distance criterion
PDB: 3SH4 Using chain: A
Using Ca-Ca distance criterion
PDB: 1MWP Using chain: A
Using Ca-Ca distance criterion
PDB: 3R8Q Using chain: A
Using Ca-Ca distance criterion
PDB: 3UMH Using chain: A
Using Ca-Ca distance criterion
PDB: 3EP0
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2247.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2287.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1RLW Using chain: A
Using Ca-Ca distance criterion
There is no match of this fragment in the pdb AA sequence XX
PDB: 2PXX Using chain: A
Using Ca-Ca distance criterion
PDB: 1I27 Using chain: A
Using Ca-Ca distance criterion
PDB: 2BRF Using chain: A
Using Ca-Ca distance criterion
PDB: 4ASC Using chain: A
Using Ca-Ca distance criterion
PDB: 2F1W Using chain: A
Using Ca-Ca distance criterion
PDB: 3RC3 Using chain: A
Using Ca-Ca distance criterion
PDB: 3EPZ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8031.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8051.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8052.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8119.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2C46
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7193.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7339.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7486.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7569.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3BIY Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue 01K is an unknown modified amino acid
PDB: 2C43 Using chain: A
Using Ca-Ca distance criterion
PDB: 2B29 Using chain: A
Using Ca-Ca distance criterion
PDB: 3CQV Using chain: A
Using Ca-Ca distance criterion
PDB: 1LF7 Using chain: A
Using Ca-Ca distance criterion
PDB: 1F0M Using chain: A
Using Ca-Ca distance criterion
PDB: 3T6P Using chain: A
Using Ca-Ca distance criterion
PDB: 3FVY Using chain: A
Using Ca-Ca distance criterion
PDB: 3U0R Using chain: A
Using Ca-Ca distance criterion
There is no match of this fragment in the pdb AA sequence PTVEELYRNYGILADATEQVGQHKDAYQVILDGVKGGTKEKRLAAQFIPKFFKHFPELADSAINAQLDLCEDEDVSIRRQAIKELPQFATGENLPRVADILTQLLQTDDSAEFNLVNNALLSIFKMDAKGTLGGLFSQILQGEDIVRERAIKFLSTKLKTLPDEVLTKEVEELILTESKKVLEDVTGEEFVLFMKILSGLKSLQTVSGRQQLVELVAEQADLEQTFNPSDPDCVDRLLQCTRQAVPLFSKNVHSTRFVTYFCEQVLPNLGTLTTPGLDIQLEVLKLLAEMSSFCGDMEKLETNLRKLFDKLLEYMPLP
There is no match of this fragment in the pdb AA sequence PKLQFSYVECLLYSFHQLGRKLPDFLTAKAEKLKDFKIRLQYFARGLQVYIRQLRLALQGKTGEALKTEENKIKVVALKITNNINVLIKDLF
PDB: 1T5I Using chain: A
Using Ca-Ca distance criterion
PDB: 3PZ7 Using chain: A
Using Ca-Ca distance criterion
PDB: 2PQ8 Using chain: A
Using Ca-Ca distance criterion
There is no match of this fragment in the pdb AA sequence IKDLSQMTSITQNDIISTLQSLNMVKYHVICVTPKLVEEHLKSAQYKKPPITVDSVCLKWAP
PDB: 3AXC Using chain: A
Using Ca-Ca distance criterion
PDB: 1EG3 Using chain: A
Using Ca-Ca distance criterion
PDB: 1UCH Using chain: A
Using Ca-Ca distance criterion
PDB: 2VGQ Using chain: A
Using Ca-Ca distance criterion
PDB: 2D0T
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6547.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6627.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6707.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6779.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3QXL
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4482.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4550.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3NMW
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11083.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11093.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11098.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11148.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1V04 Using chain: A
Using Ca-Ca distance criterion
PDB: 2CE2 Using chain: X
Using Ca-Ca distance criterion
PDB: 1FCY Using chain: A
Using Ca-Ca distance criterion
PDB: 2VGE Using chain: A
Using Ca-Ca distance criterion
PDB: 3RLE Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZRH Using chain: A
Using Ca-Ca distance criterion
PDB: 3ERB Using chain: A
Using Ca-Ca distance criterion
PDB: 3HQC Using chain: A
Using Ca-Ca distance criterion
PDB: 1TH0
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4182.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4293.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3PRY
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 13152.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 13157.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 13184.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 13188.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 13276.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 13343.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2ZNR Using chain: A
Using Ca-Ca distance criterion
PDB: 1XKS Using chain: A
Using Ca-Ca distance criterion
PDB: 3UOM
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 20612.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 20682.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 20754.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 20825.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 20896.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 20957.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 21035.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 21233.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 21417.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 21624.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 21838.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 22051.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3GM3 Using chain: A
Using Ca-Ca distance criterion
PDB: 1NM8 Using chain: A
Using Ca-Ca distance criterion
PDB: 1E8Y Using chain: A
Using Ca-Ca distance criterion
PDB: 1SNZ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5868.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3AJ4
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8664.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8718.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8758.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9116.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 4EJN Using chain: A
Using Ca-Ca distance criterion
PDB: 2OZO Using chain: A
Using Ca-Ca distance criterion
PDB: 1G8I
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3675.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3730.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3752.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3918.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3FM0 Using chain: A
Using Ca-Ca distance criterion
PDB: 1CCZ Using chain: A
Using Ca-Ca distance criterion
PDB: 4A0P Using chain: A
Using Ca-Ca distance criterion
PDB: 1WER Using chain: A
Using Ca-Ca distance criterion
PDB: 1XK5 Using chain: A
Using Ca-Ca distance criterion
PDB: 2E3H Using chain: A
Using Ca-Ca distance criterion
PDB: 2E3I Using chain: A
Using Ca-Ca distance criterion
PDB: 2E3N Using chain: A
Using Ca-Ca distance criterion
PDB: 2WM8 Using chain: A
Using Ca-Ca distance criterion
PDB: 3FCI Using chain: A
Using Ca-Ca distance criterion
PDB: 2NMS Using chain: A
Using Ca-Ca distance criterion
PDB: 3F9M Using chain: A
Using Ca-Ca distance criterion
PDB: 3S4E Using chain: A
Using Ca-Ca distance criterion
PDB: 3HIL
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2868.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2889.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZR3
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6466.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6603.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6730.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 6837.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1FL0 Using chain: A
Using Ca-Ca distance criterion
PDB: 1Z70 Using chain: X
Using Ca-Ca distance criterion
PDB: 2WVI Using chain: A
Using Ca-Ca distance criterion
PDB: 3L5I Using chain: A
Using Ca-Ca distance criterion
PDB: 3JZY Using chain: A
Using Ca-Ca distance criterion
PDB: 1HH8 Using chain: A
Using Ca-Ca distance criterion
PDB: 1M8Z Using chain: A
Using Ca-Ca distance criterion
PDB: 1OXZ Using chain: A
Using Ca-Ca distance criterion
PDB: 3L4Y Using chain: A
Using Ca-Ca distance criterion
PDB: 1VHR
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3237.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3252.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3257.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1RYO Using chain: A
Using Ca-Ca distance criterion
PDB: 3H1D Using chain: A
Using Ca-Ca distance criterion
PDB: 1UG3
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5574.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5686.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2OHF Using chain: A
Using Ca-Ca distance criterion
PDB: 3RLO Using chain: A
Using Ca-Ca distance criterion
PDB: 2QS9
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3401.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3631.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2ZG1 Using chain: A
Using Ca-Ca distance criterion
PDB: 2C0M
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10217.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10271.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 10328.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 10342.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1YW9 Using chain: A
Using Ca-Ca distance criterion
PDB: 1R5L Using chain: A
Using Ca-Ca distance criterion
PDB: 1BYW Using chain: A
Using Ca-Ca distance criterion
PDB: 2Y1M
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 19939.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 19942.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 19945.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 19948.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 19951.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 19954.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 19957.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 19989.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 20012.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 20039.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 20056.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 20068.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1I1J
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2039.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2151.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2AR5 Using chain: A
Using Ca-Ca distance criterion
PDB: 3R6B Using chain: A
Using Ca-Ca distance criterion
PDB: 3U5L Using chain: A
Using Ca-Ca distance criterion
PDB: 2Q5X Using chain: A
Using Ca-Ca distance criterion
PDB: 3RGK Using chain: A
Using Ca-Ca distance criterion
PDB: 3SD4
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2695.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2809.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1UNQ Using chain: A
Using Ca-Ca distance criterion
PDB: 3DAD
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5347.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5465.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2OAY Using chain: A
Using Ca-Ca distance criterion
PDB: 3P4L Using chain: A
Using Ca-Ca distance criterion
PDB: 1D5R Using chain: A
Using Ca-Ca distance criterion
PDB: 3EAZ Using chain: A
Using Ca-Ca distance criterion
PDB: 1X9D Using chain: A
Using Ca-Ca distance criterion
PDB: 1JSF Using chain: A
Using Ca-Ca distance criterion
PDB: 3CEG
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5205.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5395.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2R3A Using chain: A
Using Ca-Ca distance criterion
PDB: 3TU1 Using chain: A
Using Ca-Ca distance criterion
PDB: 3SR4 Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue TT8 is an unknown modified amino acid
PDB: 1FSU Using chain: A
Using Ca-Ca distance criterion
PDB: 2GGT
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3193.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3195.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3197.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3242.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2IBN
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4706.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4732.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4758.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5036.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1IJQ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5415.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6000.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2BX6 Using chain: A
Using Ca-Ca distance criterion
PDB: 1HZF Using chain: A
Using Ca-Ca distance criterion
PDB: 3P3Y Using chain: A
Using Ca-Ca distance criterion
PDB: 3SMZ Using chain: A
Using Ca-Ca distance criterion
PDB: 3E0C Using chain: A
Using Ca-Ca distance criterion
PDB: 2P8V Using chain: A
Using Ca-Ca distance criterion
PDB: 1LB4 Using chain: A
Using Ca-Ca distance criterion
PDB: 2BW0 Using chain: A
Using Ca-Ca distance criterion
PDB: 4A3P Using chain: A
Using Ca-Ca distance criterion
PDB: 1KWM
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7116.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7130.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7131.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7583.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1BKR Using chain: A
Using Ca-Ca distance criterion
PDB: 2P8E
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5057.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5058.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5059.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5277.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3HMS Using chain: A
Using Ca-Ca distance criterion
PDB: 2Y7B Using chain: A
Using Ca-Ca distance criterion
PDB: 2QQI Using chain: A
Using Ca-Ca distance criterion
PDB: 2WZB Using chain: A
Using Ca-Ca distance criterion
PDB: 1XTI Using chain: A
Using Ca-Ca distance criterion
PDB: 3U9J
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5850.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5852.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5854.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6046.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1KTH Using chain: A
Using Ca-Ca distance criterion
PDB: 2XES
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4356.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4369.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4370.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4614.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3D59
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 12733.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 12869.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 12985.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 13278.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1K0M
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7943.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8657.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3U9H
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4059.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4097.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4124.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4318.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2O3H Using chain: A
Using Ca-Ca distance criterion
PDB: 2FRG Using chain: P
Using Ca-Ca distance criterion
PDB: 3GA3 Using chain: A
Using Ca-Ca distance criterion
PDB: 3IJC Using chain: A
Using Ca-Ca distance criterion
PDB: 2H8H Using chain: A
Using Ca-Ca distance criterion
PDB: 2H8L
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6502.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6686.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6815.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 4DDP Using chain: A
Using Ca-Ca distance criterion
PDB: 1SRA Using chain: A
Using Ca-Ca distance criterion
PDB: 2AG4
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3064.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3139.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3222.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3521.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1N5U Using chain: A
Using Ca-Ca distance criterion
PDB: 1IAP Using chain: A
Using Ca-Ca distance criterion
PDB: 2D4H
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5277.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5301.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5325.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5388.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2HDZ Using chain: A
Using Ca-Ca distance criterion
PDB: 3ANS
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5596.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5616.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5636.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5743.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2VYI
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2317.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2404.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1JHJ Using chain: A
Using Ca-Ca distance criterion
PDB: 1CY5 Using chain: A
Using Ca-Ca distance criterion
PDB: 2WQ9 Using chain: A
Using Ca-Ca distance criterion
PDB: 2XB1
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3864.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 3872.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3887.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 3980.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2V5T Using chain: A
Using Ca-Ca distance criterion
PDB: 3IJ8 Using chain: A
Using Ca-Ca distance criterion
PDB: 2V5O Using chain: A
Using Ca-Ca distance criterion
PDB: 3TOW Using chain: A
Using Ca-Ca distance criterion
PDB: 1UUH
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2800.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2921.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2O36 Using chain: A
Using Ca-Ca distance criterion
PDB: 3BVO
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3765.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3766.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3767.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3PT3
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3604.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3640.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3ZYQ Using chain: A
Using Ca-Ca distance criterion
PDB: 1WAK Using chain: A
Using Ca-Ca distance criterion
PDB: 3CW3 Using chain: A
Using Ca-Ca distance criterion
PDB: 3UV5 Using chain: A
Using Ca-Ca distance criterion
PDB: 1WAO
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain 1 is discontinuous at line 16086.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain 2 is discontinuous at line 16088.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain 3 is discontinuous at line 16090.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain 4 is discontinuous at line 16092.
 Using chain: 1
Using Ca-Ca distance criterion
PDB: 3PE0
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9322.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9324.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2ESK Using chain: A
Using Ca-Ca distance criterion
PDB: 2H3L
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3453.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3683.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3EAE
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2010.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2044.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2WZ9 Using chain: A
Using Ca-Ca distance criterion
PDB: 3F04 Using chain: A
Using Ca-Ca distance criterion
PDB: 2ESB Using chain: A
Using Ca-Ca distance criterion
PDB: 1QUB Using chain: A
Using Ca-Ca distance criterion
PDB: 1NUG
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11373.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11378.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11383.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11788.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3EQM Using chain: A
Using Ca-Ca distance criterion
PDB: 3BHD
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4212.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4219.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4220.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4233.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4289.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4400.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2R8U
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4911.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5205.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2Z15
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4394.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4541.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 4659.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 4776.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2Z14 Using chain: A
Using Ca-Ca distance criterion
PDB: 3LLH
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 1362.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 1375.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3BHY Using chain: A
Using Ca-Ca distance criterion
PDB: 2NSM Using chain: A
Using Ca-Ca distance criterion
PDB: 3TBD Using chain: A
Using Ca-Ca distance criterion
PDB: 1MFM Using chain: A
Using Ca-Ca distance criterion
PDB: 2Z80
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5590.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5748.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2YLF Using chain: A
Using Ca-Ca distance criterion
PDB: 1Q1C Using chain: A
Using Ca-Ca distance criterion
PDB: 2FH7 Using chain: A
Using Ca-Ca distance criterion
PDB: 1FO3 Using chain: A
Using Ca-Ca distance criterion
PDB: 3BCZ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10320.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10332.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 10338.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10344.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10460.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 10595.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 10681.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2YLM Using chain: A
Using Ca-Ca distance criterion
PDB: 3PFY Using chain: A
Using Ca-Ca distance criterion
PDB: 3IUG
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3553.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3555.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3564.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3739.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2FH1
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8416.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8419.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 8422.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8425.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8862.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9278.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1Q1Q Using chain: A
Using Ca-Ca distance criterion
PDB: 4AAP
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8058.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8070.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8082.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8095.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2D58 Using chain: A
Using Ca-Ca distance criterion
PDB: 3BCH Using chain: A
Using Ca-Ca distance criterion
PDB: 1U6T Using chain: A
Using Ca-Ca distance criterion
PDB: 3T5O Using chain: A
Using Ca-Ca distance criterion
PDB: 2IHD Using chain: A
Using Ca-Ca distance criterion
PDB: 3AY5 Using chain: A
Using Ca-Ca distance criterion
PDB: 2P57 Using chain: A
Using Ca-Ca distance criterion
PDB: 2CCQ Using chain: A
Using Ca-Ca distance criterion
PDB: 3RK6
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4065.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4243.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2FK9 Using chain: A
Using Ca-Ca distance criterion
PDB: 1IFR Using chain: A
Using Ca-Ca distance criterion
PDB: 1ELV Using chain: A
Using Ca-Ca distance criterion
PDB: 1A6Q Using chain: A
Using Ca-Ca distance criterion
PDB: 1JWF Using chain: A
Using Ca-Ca distance criterion
PDB: 3IU1
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6928.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6991.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7654.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3TC5 Using chain: A
Using Ca-Ca distance criterion
PDB: 3IU5 Using chain: A
Using Ca-Ca distance criterion
PDB: 3QE2
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10374.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10490.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10605.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11201.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2A2C Using chain: A
Using Ca-Ca distance criterion
PDB: 3D2N Using chain: A
Using Ca-Ca distance criterion
PDB: 1MF7 Using chain: A
Using Ca-Ca distance criterion
PDB: 1KO9 Using chain: A
Using Ca-Ca distance criterion
PDB: 2CBZ Using chain: A
Using Ca-Ca distance criterion
PDB: 2A2K Using chain: A
Using Ca-Ca distance criterion
PDB: 1EVS Using chain: A
Using Ca-Ca distance criterion
PDB: 3S7R
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2900.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2906.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2910.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2965.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2J5W Using chain: A
Using Ca-Ca distance criterion
PDB: 2XUB Using chain: A
Using Ca-Ca distance criterion
PDB: 3LUC
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3546.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 3561.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3576.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3759.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 3899.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2OEW Using chain: A
Using Ca-Ca distance criterion
PDB: 3D2Q
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2745.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2747.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 2749.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 2751.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2753.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2855.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 2933.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 2991.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3OOI Using chain: A
Using Ca-Ca distance criterion
PDB: 3EQ5
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11080.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11141.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 11188.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 11218.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 11241.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 11250.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain G is discontinuous at line 11282.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain H is discontinuous at line 11292.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain I is discontinuous at line 11312.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain J is discontinuous at line 11348.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain K is discontinuous at line 11391.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain L is discontinuous at line 11407.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3UE2 Using chain: A
Using Ca-Ca distance criterion
PDB: 3HBW
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2824.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2887.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZCM Using chain: A
Using Ca-Ca distance criterion
PDB: 2GGZ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3325.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3328.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2IZR Using chain: A
Using Ca-Ca distance criterion
PDB: 2B4Y
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8863.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8915.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 8967.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 9019.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9071.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9262.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9454.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 9630.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2QQO
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7701.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7714.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7735.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7918.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1PJA Using chain: A
Using Ca-Ca distance criterion
PDB: 2I75 Using chain: A
Using Ca-Ca distance criterion
PDB: 2P26 Using chain: A
Using Ca-Ca distance criterion
PDB: 3Q93
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5776.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5808.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5818.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5958.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2W50
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 1968.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 1978.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 1988.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2067.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2W51 Using chain: A
Using Ca-Ca distance criterion
PDB: 2QQR
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2588.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2603.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2618.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2776.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3R6N
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 15473.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 15489.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 15505.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 15521.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2XYC Using chain: A
Using Ca-Ca distance criterion
PDB: 2FVV Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZD8 Using chain: A
Using Ca-Ca distance criterion
PDB: 1LSL Using chain: A
Using Ca-Ca distance criterion
PDB: 1M9I Using chain: A
Using Ca-Ca distance criterion
PDB: 3FSO
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6614.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6756.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3B6H
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8285.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8363.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8441.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8842.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3F7Q
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10964.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10996.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11021.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11275.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3SW0 Using chain: X
Using Ca-Ca distance criterion
PDB: 1N1F Using chain: A
Using Ca-Ca distance criterion
PDB: 2OK5 Using chain: A
Using Ca-Ca distance criterion
PDB: 3PY7 Using chain: A
Using Ca-Ca distance criterion
PDB: 1NCN Using chain: A
Using Ca-Ca distance criterion
PDB: 1M9Z Using chain: A
Using Ca-Ca distance criterion
PDB: 3LS8
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 18332.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 18362.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 18386.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 18749.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3KNV Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZJK Using chain: A
Using Ca-Ca distance criterion
PDB: 3GKJ Using chain: A
Using Ca-Ca distance criterion
PDB: 3TZM Using chain: A
Using Ca-Ca distance criterion
PDB: 2O71 Using chain: A
Using Ca-Ca distance criterion
PDB: 1L3K Using chain: A
Using Ca-Ca distance criterion
PDB: 1KHB Using chain: A
Using Ca-Ca distance criterion
PDB: 1WCH Using chain: A
Using Ca-Ca distance criterion
PDB: 3OUI Using chain: A
Using Ca-Ca distance criterion
PDB: 3I2N Using chain: A
Using Ca-Ca distance criterion
PDB: 3SWR Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue SFG is an unknown modified amino acid
PDB: 2FDV
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 15959.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 16035.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 16097.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 16179.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 16240.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 16651.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 16906.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 17323.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2YW8 Using chain: A
Using Ca-Ca distance criterion
PDB: 1HPT Using chain: A
Using Ca-Ca distance criterion
PDB: 3I2V Using chain: A
Using Ca-Ca distance criterion
PDB: 3N5N
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain X is discontinuous at line 8900.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain Y is discontinuous at line 8916.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain X is discontinuous at line 8935.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain Y is discontinuous at line 8981.
 Using chain: X
Using Ca-Ca distance criterion
PDB: 3GEB
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8936.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8937.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 8938.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 8939.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8940.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8968.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 8980.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 8993.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3ZRH Using chain: A
Using Ca-Ca distance criterion
PDB: 4D8K Using chain: A
Using Ca-Ca distance criterion
PDB: 4ELJ Using chain: A
Using Ca-Ca distance criterion
PDB: 2B3H Using chain: A
Using Ca-Ca distance criterion
PDB: 2V9K Using chain: A
Using Ca-Ca distance criterion
PDB: 3QWL Using chain: A
Using Ca-Ca distance criterion
PDB: 2XVS Using chain: A
Using Ca-Ca distance criterion
PDB: 3FB2
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3674.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3794.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2I7V Using chain: A
Using Ca-Ca distance criterion
PDB: 2XY2 Using chain: A
Using Ca-Ca distance criterion
PDB: 2B3Y
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 15319.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 15343.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 15362.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 15882.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3DDU Using chain: A
Using Ca-Ca distance criterion
PDB: 3NR5 Using chain: A
Using Ca-Ca distance criterion
PDB: 3MEW Using chain: A
Using Ca-Ca distance criterion
PDB: 3QWP Using chain: A
Using Ca-Ca distance criterion
PDB: 2V9S
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7516.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7522.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7529.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7647.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7767.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7921.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3T7A Using chain: A
Using Ca-Ca distance criterion
PDB: 3RBS Using chain: A
Using Ca-Ca distance criterion
PDB: 2W5Y Using chain: A
Using Ca-Ca distance criterion
PDB: 3PFS
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4721.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4727.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4728.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4796.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2VAC Using chain: A
Using Ca-Ca distance criterion
PDB: 1QDD Using chain: A
Using Ca-Ca distance criterion
PDB: 2BOU Using chain: A
Using Ca-Ca distance criterion
PDB: 1SHU Using chain: X
Using Ca-Ca distance criterion
PDB: 3CXL Using chain: A
Using Ca-Ca distance criterion
PDB: 3K1Z Using chain: A
Using Ca-Ca distance criterion
PDB: 1X8B Using chain: A
Using Ca-Ca distance criterion
PDB: 3A77
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7961.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7973.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7981.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7993.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8001.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8267.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 8542.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 8796.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3SHU
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3299.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3355.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2A1I Using chain: A
Using Ca-Ca distance criterion
PDB: 3NGQ Using chain: A
Using Ca-Ca distance criterion
PDB: 2HW4 Using chain: A
Using Ca-Ca distance criterion
PDB: 2WL1 Using chain: A
Using Ca-Ca distance criterion
PDB: 4DJX
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 12844.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 12878.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 12912.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 13402.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1UOH Using chain: A
Using Ca-Ca distance criterion
PDB: 3SEI
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5080.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5085.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5086.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5167.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1SO7 Using chain: A
Using Ca-Ca distance criterion
PDB: 1IKT Using chain: A
Using Ca-Ca distance criterion
PDB: 3D06 Using chain: A
Using Ca-Ca distance criterion
PDB: 2FOZ Using chain: A
Using Ca-Ca distance criterion
PDB: 3S8S Using chain: A
Using Ca-Ca distance criterion
PDB: 3V34
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3066.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3067.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3068.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3152.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2VH7 Using chain: A
Using Ca-Ca distance criterion
PDB: 3V33
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5847.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5985.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 4DA1 Using chain: A
Using Ca-Ca distance criterion
PDB: 2CLT
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6694.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6700.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6706.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6812.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2V14 Using chain: A
Using Ca-Ca distance criterion
PDB: 3KUQ Using chain: A
Using Ca-Ca distance criterion
PDB: 2Z6O Using chain: A
Using Ca-Ca distance criterion
PDB: 2Z62 Using chain: A
Using Ca-Ca distance criterion
PDB: 2Z63 Using chain: A
Using Ca-Ca distance criterion
PDB: 2J8B Using chain: A
Using Ca-Ca distance criterion
PDB: 1JY1 Using chain: A
Using Ca-Ca distance criterion
PDB: 2Z66
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10745.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10889.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 11033.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 11177.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11244.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 11249.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11298.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 11303.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 11331.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 11336.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11341.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11462.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 11578.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 11695.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3KGR
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5256.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5267.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5422.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 5585.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1WOJ Using chain: A
Using Ca-Ca distance criterion
PDB: 3P23
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 26040.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 26073.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 26101.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 26129.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 26157.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 26257.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 26362.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 26455.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3V3L
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3542.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3614.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3686.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3812.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3ECR
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5434.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5464.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5494.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5571.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3PV7 Using chain: A
Using Ca-Ca distance criterion
PDB: 1Z6T
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 19747.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 19774.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 19801.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 19828.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 19855.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 20059.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 20279.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 20472.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1WOU Using chain: A
Using Ca-Ca distance criterion
PDB: 2PMV
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10886.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 10914.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10942.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11124.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11259.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 11359.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 11488.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2POM Using chain: A
Using Ca-Ca distance criterion
PDB: 1H7S
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5398.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5554.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3EDU Using chain: A
Using Ca-Ca distance criterion
PDB: 2F60 Using chain: K
Using Ca-Ca distance criterion
PDB: 1WPA Using chain: A
Using Ca-Ca distance criterion
PDB: 1H4A Using chain: X
Using Ca-Ca distance criterion
PDB: 3B5H
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6726.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6735.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 6744.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3EDY Using chain: A
Using Ca-Ca distance criterion
PDB: 3POW Using chain: A
Using Ca-Ca distance criterion
PDB: 3FLG Using chain: A
Using Ca-Ca distance criterion
PDB: 2JGN
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4304.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4354.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 4417.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3CX2 Using chain: A
Using Ca-Ca distance criterion
PDB: 3C7X Using chain: A
Using Ca-Ca distance criterion
PDB: 1W0H Using chain: A
Using Ca-Ca distance criterion
PDB: 2HWY Using chain: A
Using Ca-Ca distance criterion
PDB: 3EDH Using chain: A
Using Ca-Ca distance criterion
PDB: 1JR2
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8679.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9243.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1P6F Using chain: A
Using Ca-Ca distance criterion
PDB: 3O2T Using chain: A
Using Ca-Ca distance criterion
PDB: 2FAU Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue CAF is an unknown modified amino acid
There is no match of this fragment in the pdb AA sequence GFFGPIXEIDIVLNDGETRKMAEMKTEDGKVEKHYLFYDGESVSGKVNLAFKQPGKRLEHQGIRIEFVGQIELFNDKSNTHEFVNLVKELALPGELTQSRSYDFEFMQVEKPYESYIGANVRLRYFLKVTIVRRLTDLVKEYDLIVHQLATYPDVNNSIKMEVGIEDXLHIEFEYNKSKYHLKDVIVGKIYFLLVRIKIQHMELQLIKKEITGIGPSTTTETETIAKYEIMDG
PDB: 1F9P Using chain: A
Using Ca-Ca distance criterion
PDB: 1CDY Using chain: A
Using Ca-Ca distance criterion
PDB: 2PSO Using chain: A
Using Ca-Ca distance criterion
PDB: 2VZC
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6003.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6031.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6063.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6341.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3HFW Using chain: A
Using Ca-Ca distance criterion
PDB: 3OV6 Using chain: A
Using Ca-Ca distance criterion
PDB: 1L6J Using chain: A
Using Ca-Ca distance criterion
PDB: 3KS3 Using chain: A
Using Ca-Ca distance criterion
PDB: 3GFC Using chain: A
Using Ca-Ca distance criterion
PDB: 2RB8 Using chain: A
Using Ca-Ca distance criterion
PDB: 1EAZ Using chain: A
Using Ca-Ca distance criterion
PDB: 1UZE Using chain: A
Using Ca-Ca distance criterion
PDB: 2W0G Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZGK Using chain: A
Using Ca-Ca distance criterion
PDB: 1IPC Using chain: A
Using Ca-Ca distance criterion
PDB: 2Y4T
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 21308.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 21318.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 21326.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1L9L Using chain: A
Using Ca-Ca distance criterion
PDB: 3QVE
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7017.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7070.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7143.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7176.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7319.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7458.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2FZP Using chain: A
Using Ca-Ca distance criterion
PDB: 2JE0
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7896.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7908.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7914.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7926.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 7944.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 7950.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7962.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8017.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 8069.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 8123.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 8170.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 8218.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2PZ1 Using chain: A
Using Ca-Ca distance criterion
PDB: 3VJ9 Using chain: A
Using Ca-Ca distance criterion
PDB: 3KJD
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6207.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6231.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6255.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6481.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3RAY Using chain: A
Using Ca-Ca distance criterion
PDB: 1HTJ Using chain: F
Using Ca-Ca distance criterion
PDB: 3H0H Using chain: A
Using Ca-Ca distance criterion
PDB: 2DH2 Using chain: A
Using Ca-Ca distance criterion
PDB: 3EVI
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2360.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2368.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2390.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3QNT Using chain: A
Using Ca-Ca distance criterion
PDB: 3BGV
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9633.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9737.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9865.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9976.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 10096.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1RXD
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4122.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4204.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 4300.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2DDF
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4537.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4572.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4821.
 Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue INN is an unknown modified amino acid
PDB: 3I6C
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3947.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4013.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4063.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4267.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3O5E Using chain: A
Using Ca-Ca distance criterion
PDB: 2GK6
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10283.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10316.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10349.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10464.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2NYU
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6425.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6452.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6479.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6589.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1AD6 Using chain: A
Using Ca-Ca distance criterion
PDB: 3GF9 Using chain: A
Using Ca-Ca distance criterion
PDB: 1G55 Using chain: A
Using Ca-Ca distance criterion
PDB: 4APC
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5481.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5485.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5488.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5575.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1AOA Using chain: A
Using Ca-Ca distance criterion
PDB: 2C60 Using chain: A
Using Ca-Ca distance criterion
PDB: 3O5Q Using chain: A
Using Ca-Ca distance criterion
PDB: 1BX4 Using chain: A
Using Ca-Ca distance criterion
PDB: 3TJM Using chain: A
Using Ca-Ca distance criterion
PDB: 3RFE
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2406.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2446.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2666.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2Q4Q
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2394.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2456.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4286.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4348.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6178.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6240.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8070.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8133.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9962.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10026.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11854.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11917.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 13746.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 13810.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 15638.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 15701.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 17530.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 17592.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 19422.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 19485.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 21314.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 21377.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 23206.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 23269.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 25098.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 25161.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 26990.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 27052.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 28882.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 28946.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 30774.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 30837.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1R4X Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue CAS is an unknown modified amino acid
There is no match of this fragment in the pdb AA sequence MHHHHHHMTRQEIFQEQLAAVPEFRGLGPLFKSSPEPVALTESETEYVIRCTKHTFTNHMVFQFDCTNTLNDQTLENVTVQMEPTEAYEVLXYVPARSLPYNQPGTCYTLVALPKEDPTAVACTFSCMMKFTVKDCDPTTGETDDEGYEDEYVLEDLEVTVADHIQKVMKLNFEAAWDEVGDEFEKEETFTLSTIKTLEEAVGNIVKFLGMHPCERSDKVPDNKNTHTLLLAGVFRGGHDILVRSRLLLLDTVTMQVTARSLEELPVDIILASV
PDB: 1MHN Using chain: A
Using Ca-Ca distance criterion
PDB: 1DTJ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2383.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2435.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 2474.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 2538.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2O9S Using chain: A
Using Ca-Ca distance criterion
PDB: 3U2P Using chain: A
Using Ca-Ca distance criterion
PDB: 2ZKM Using chain: X
Using Ca-Ca distance criterion
PDB: 1NF1 Using chain: A
Using Ca-Ca distance criterion
PDB: 1IGR Using chain: A
Using Ca-Ca distance criterion
PDB: 1WLJ Using chain: A
Using Ca-Ca distance criterion
PDB: 2GY5 Using chain: A
Using Ca-Ca distance criterion
PDB: 1FNF Using chain: A
Using Ca-Ca distance criterion
PDB: 4DND Using chain: A
Using Ca-Ca distance criterion
PDB: 3M03
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4679.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4691.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4696.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4742.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 4806.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2XTP Using chain: A
Using Ca-Ca distance criterion
PDB: 3TTJ Using chain: A
Using Ca-Ca distance criterion
PDB: 1N45
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7490.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7586.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7672.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8110.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 4DNL Using chain: A
Using Ca-Ca distance criterion
PDB: 1WLZ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3210.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3341.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 3467.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 3596.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3C5E Using chain: A
Using Ca-Ca distance criterion
PDB: 3QJ4
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10958.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11074.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11185.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11252.
 Using chain: A
Using Ca-Ca distance criterion
There is no match of this fragment in the pdb AA sequence GDCNFVAPQGISSIIKHYLKESGAEVYFRHRVTQINLRDDKWEVSKQTGSPEQFDLIVLTMPVPEILQLQGDITTLISECQRQQLEAVSYSSRYALGLFYEAGTDVPWAGQYITSNPCIRFVSIDNKKRNIESS
PDB: 1TXD Using chain: A
Using Ca-Ca distance criterion
PDB: 2X47 Using chain: A
Using Ca-Ca distance criterion
PDB: 3PD7
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5533.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5890.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3NEY
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9396.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9413.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9439.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 9454.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 9469.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 9478.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9487.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9516.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9561.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 9597.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 9629.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 9666.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1BY2 Using chain: A
Using Ca-Ca distance criterion
PDB: 2YDL Using chain: A
Using Ca-Ca distance criterion
PDB: 2QT1 Using chain: A
Using Ca-Ca distance criterion
PDB: 1US0 Using chain: A
Using Ca-Ca distance criterion
PDB: 2ODP Using chain: A
Using Ca-Ca distance criterion
PDB: 1P5J Using chain: A
Using Ca-Ca distance criterion
PDB: 1Y02 Using chain: A
Using Ca-Ca distance criterion
PDB: 1EWF Using chain: A
Using Ca-Ca distance criterion
PDB: 1BNL
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6164.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6165.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6166.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 6167.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3V98
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 22332.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 22333.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 22334.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 22816.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2SHP
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10443.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10459.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 10475.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2IYK
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5545.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5548.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3FAY Using chain: A
Using Ca-Ca distance criterion
PDB: 3KT9 Using chain: A
Using Ca-Ca distance criterion
PDB: 2B9E Using chain: A
Using Ca-Ca distance criterion
PDB: 2YD0 Using chain: A
Using Ca-Ca distance criterion
PDB: 1QB0 Using chain: A
Using Ca-Ca distance criterion
PDB: 3KCI Using chain: A
Using Ca-Ca distance criterion
PDB: 2XZG Using chain: A
Using Ca-Ca distance criterion
PDB: 1CS8 Using chain: A
Using Ca-Ca distance criterion
PDB: 3QKD
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2975.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3033.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3150.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2HBT Using chain: A
Using Ca-Ca distance criterion
PDB: 2BK8 Using chain: A
Using Ca-Ca distance criterion
PDB: 2QTZ Using chain: A
Using Ca-Ca distance criterion
PDB: 3L6A Using chain: A
Using Ca-Ca distance criterion
PDB: 3ZR0
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5512.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5546.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5585.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5853.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1TAZ Using chain: A
Using Ca-Ca distance criterion
PDB: 3MAO Using chain: A
Using Ca-Ca distance criterion
PDB: 4ACR
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 26117.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 26145.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 26201.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 26229.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 26285.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 26320.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 26375.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 26445.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2BBS
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4467.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4499.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4531.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4708.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3MTS
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3642.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3666.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 3676.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 4DEQ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7361.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7372.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1NFN Using chain: A
Using Ca-Ca distance criterion
PDB: 1CZA Using chain: N
Using Ca-Ca distance criterion
PDB: 1OW1 Using chain: A
Using Ca-Ca distance criterion
PDB: 3IQ2
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2671.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2707.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2738.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2929.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3CKK Using chain: A
Using Ca-Ca distance criterion
PDB: 1L2H Using chain: A
Using Ca-Ca distance criterion
PDB: 3RJO Using chain: A
Using Ca-Ca distance criterion
PDB: 3I3C
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2579.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2580.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2581.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2593.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 2602.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 2606.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1MLW Using chain: A
Using Ca-Ca distance criterion
PDB: 3QOR
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5664.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 5856.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 6092.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 6268.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1F5N Using chain: A
Using Ca-Ca distance criterion
PDB: 1T77
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 14107.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 14237.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 14350.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 14475.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2OJQ Using chain: A
Using Ca-Ca distance criterion
PDB: 3HAK Using chain: A
Using Ca-Ca distance criterion
PDB: 3IDV Using chain: A
Using Ca-Ca distance criterion
PDB: 2NT0
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 16803.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 16849.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 16925.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 16984.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 17051.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 17456.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 17913.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 18326.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1GS9 Using chain: A
Using Ca-Ca distance criterion
PDB: 3LYR Using chain: A
Using Ca-Ca distance criterion
PDB: 1MG4 Using chain: A
Using Ca-Ca distance criterion
PDB: 3EH1 Using chain: A
Using Ca-Ca distance criterion
PDB: 3QF2
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3608.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3729.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2QYQ Using chain: A
Using Ca-Ca distance criterion
PDB: 3SLA
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6687.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 6711.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 6723.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6737.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6755.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6772.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 6774.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 6795.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1G1T Using chain: A
Using Ca-Ca distance criterion
PDB: 2F37
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4461.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4466.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4471.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4670.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2RGZ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5603.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5646.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5689.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5738.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9328.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9371.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 12970.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 13013.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 16612.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 16655.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 20254.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 20297.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 23896.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 23939.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 27538.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 27581.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 31180.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 31223.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 34822.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 34865.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 38464.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 38507.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 42106.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 42149.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 45748.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 45791.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 49390.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 49433.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 53032.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 53075.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 56674.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 56717.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 60316.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 60359.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2WFI Using chain: A
Using Ca-Ca distance criterion
PDB: 1SEN Using chain: A
Using Ca-Ca distance criterion
PDB: 2QOL Using chain: A
Using Ca-Ca distance criterion
PDB: 3P6D Using chain: A
Using Ca-Ca distance criterion
PDB: 3QFT Using chain: A
Using Ca-Ca distance criterion
PDB: 3G07
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 18562.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 18616.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 18670.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 18724.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 18778.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 18832.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3L42 Using chain: A
Using Ca-Ca distance criterion
PDB: 3CPF
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2612.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2626.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1NTY Using chain: A
Using Ca-Ca distance criterion
PDB: 2NTE
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4034.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4052.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4067.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4200.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2Q9V Using chain: A
Using Ca-Ca distance criterion
PDB: 2QY7
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3873.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3989.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 4095.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1YYH
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3555.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3840.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2HYV Using chain: A
Using Ca-Ca distance criterion
PDB: 3RSN Using chain: A
Using Ca-Ca distance criterion
PDB: 2P39 Using chain: A
Using Ca-Ca distance criterion
PDB: 2WFT
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 14027.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 14030.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 14033.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 14052.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3UV2 Using chain: A
Using Ca-Ca distance criterion
PDB: 2FLS Using chain: A
Using Ca-Ca distance criterion
PDB: 1ELK
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2804.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3005.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3UV4
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4663.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4673.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4686.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4837.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2QFZ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5579.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5586.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 5591.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 5633.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3HYG
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4039.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4070.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4101.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4389.
 Using chain: A
Using Ca-Ca distance criterion
There is no match of this fragment in the pdb AA sequence XX
PDB: 2Q0Z Using chain: X
Using Ca-Ca distance criterion
PDB: 3SOE Using chain: A
Using Ca-Ca distance criterion
PDB: 1T7V Using chain: A
Using Ca-Ca distance criterion
PDB: 1KI0 Using chain: A
Using Ca-Ca distance criterion
PDB: 1R8M Using chain: E
Using Ca-Ca distance criterion
PDB: 2QFD
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11590.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11591.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 11592.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 11593.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 11594.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 11595.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain G is discontinuous at line 11596.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain H is discontinuous at line 11597.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain I is discontinuous at line 11598.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain J is discontinuous at line 11599.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 11600.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 11627.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 11652.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 11664.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 11679.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 11687.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain G is discontinuous at line 11691.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain H is discontinuous at line 11699.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3OZ1
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7516.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7608.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7700.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7792.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7884.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7885.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7888.
 Using chain: A
Using Ca-Ca distance criterion

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/Polypeptide.py", line 315
    "amino acid" % residue.get_resname())
UserWarning: Assuming residue BMB is an unknown modified amino acid
PDB: 3I33 Using chain: A
Using Ca-Ca distance criterion
PDB: 3UD1
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8545.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8560.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 8575.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8581.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8804.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9002.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3DKP Using chain: A
Using Ca-Ca distance criterion
PDB: 1NB9 Using chain: A
Using Ca-Ca distance criterion
PDB: 3OAI
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8385.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8408.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8431.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8702.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3PYC Using chain: A
Using Ca-Ca distance criterion
PDB: 3G4G
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 12155.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 12186.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 12217.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 12248.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 12279.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 12318.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 12353.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 12401.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3G4E
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9723.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9725.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9727.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 10195.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2Y5C
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3794.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3830.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4060.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3DLM Using chain: A
Using Ca-Ca distance criterion
PDB: 3FDW
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2523.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2590.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2DW4 Using chain: A
Using Ca-Ca distance criterion
PDB: 2E56 Using chain: A
Using Ca-Ca distance criterion
PDB: 2YYO Using chain: A
Using Ca-Ca distance criterion
PDB: 1Z5V Using chain: A
Using Ca-Ca distance criterion
PDB: 1OZ2 Using chain: A
Using Ca-Ca distance criterion
PDB: 3FDR Using chain: A
Using Ca-Ca distance criterion
PDB: 1BR9 Using chain: A
Using Ca-Ca distance criterion
PDB: 3MYI Using chain: A
Using Ca-Ca distance criterion
PDB: 3IHO Using chain: A
Using Ca-Ca distance criterion
PDB: 1IU1
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2340.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1WMA Using chain: A
Using Ca-Ca distance criterion
PDB: 3HWN
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7434.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7468.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7502.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7536.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7570.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7605.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 7641.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 7672.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3QQ7 Using chain: A
Using Ca-Ca distance criterion
PDB: 2Y23 Using chain: A
Using Ca-Ca distance criterion
PDB: 2IU1 Using chain: A
Using Ca-Ca distance criterion
PDB: 3HNY Using chain: M
Using Ca-Ca distance criterion
PDB: 3GQQ
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 18033.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 18039.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 18043.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 18047.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 18053.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 18059.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 18063.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 18223.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 18357.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 18512.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 18670.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 18778.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1H7C Using chain: A
Using Ca-Ca distance criterion
PDB: 3AL2 Using chain: A
Using Ca-Ca distance criterion
PDB: 2OXC
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7136.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 7190.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 7956.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1TDH Using chain: A
Using Ca-Ca distance criterion
PDB: 3JUD Using chain: A
Using Ca-Ca distance criterion
PDB: 3JUE
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8467.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8489.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8496.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8644.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3DCY Using chain: A
Using Ca-Ca distance criterion
PDB: 2EVA Using chain: A
Using Ca-Ca distance criterion
PDB: 3JUI Using chain: A
Using Ca-Ca distance criterion
PDB: 3Q27 Using chain: A
Using Ca-Ca distance criterion
PDB: 1UWY Using chain: A
Using Ca-Ca distance criterion
PDB: 2AEW
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3476.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3495.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2GFO Using chain: A
Using Ca-Ca distance criterion
PDB: 2C9A Using chain: A
Using Ca-Ca distance criterion
PDB: 1DBH Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZBU
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9476.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9501.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9526.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 9551.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 9576.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 9589.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 9602.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 9608.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2QPW Using chain: A
Using Ca-Ca distance criterion
PDB: 1NKO Using chain: A
Using Ca-Ca distance criterion
PDB: 1OZN Using chain: A
Using Ca-Ca distance criterion
PDB: 3NO8
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2928.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 2951.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 2957.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3019.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 1ZIW Using chain: A
Using Ca-Ca distance criterion
PDB: 1J1L Using chain: A
Using Ca-Ca distance criterion
PDB: 3PG7
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8603.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8649.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 8713.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 8811.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 2I9A
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 4562.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 4567.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 4582.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 4674.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 4764.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 4847.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3IEI
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 21260.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 21292.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 21336.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 21368.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 21412.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 21456.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain G is discontinuous at line 21488.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain H is discontinuous at line 21520.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 21564.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 21803.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 22000.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain D is discontinuous at line 22231.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain E is discontinuous at line 22482.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain F is discontinuous at line 22765.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain G is discontinuous at line 23013.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain H is discontinuous at line 23248.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3HX3 Using chain: A
Using Ca-Ca distance criterion
PDB: 2VPI
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 3363.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 3415.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3LLK
Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6484.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6550.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6603.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain A is discontinuous at line 6656.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain B is discontinuous at line 6831.

Warning (from warnings module):
  File "/Library/Frameworks/Python.framework/Versions/7.3/lib/python2.7/site-packages/Bio/PDB/StructureBuilder.py", line 85
    PDBConstructionWarning)
PDBConstructionWarning: WARNING: Chain C is discontinuous at line 6976.
 Using chain: A
Using Ca-Ca distance criterion
PDB: 3GHM Using chain: A
Using Ca-Ca distance criterion
Filtering alignments by longest ungapped segment length and percent identity:
	Minimum length of ungapped segment in local alignment = 50
	Minimum percent identity over length of this segment = 97.0

The following PDB-IDs did not pass the PDB:CCDS alignment filter for any CCDS and will be removed.
	1YZM
	2HZQ
	3QLN
	2FMA
	3OP5
	3IIJ
	1F0M
	3PZ7
	1V04
	1CCZ
	2WZ9
	1MFM
	3PY7
	1HPT
	3PFS
	3SEI
	3TOW
	2RB8
	2YDL
	3U9H
	3Q27
=====| 21 PDB-IDs removed; 841 remaining. |=====

Writing output files and calculating distance matrices & solvent accessibilities.
	4A14 	Calculation done: 0.118906064209 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QVE 	Calculation done: 0.237812128419 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3N94 	Calculation done: 0.356718192628 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3S98 	Calculation done: 0.475624256837 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3S98
non-standard AA:  H_MSE occurred at resseq positions:  [43, 128, 228]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2NQC 	Calculation done: 0.594530321046 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3K7I 	Calculation done: 0.713436385256 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RW7 	Calculation done: 0.832342449465 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2CKK 	Calculation done: 0.951248513674 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1FMK 	Calculation done: 1.07015457788 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1FMK
non-standard AA:  H_PTR occurred at resseq positions:  [527]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1FMK
nchck =  436 nres =  437
	3BFX 	Calculation done: 1.18906064209 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2IGP 	Calculation done: 1.3079667063 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1KMV 	Calculation done: 1.42687277051 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1KMT 	Calculation done: 1.54577883472 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1EM2 	Calculation done: 1.66468489893 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1EM2
non-standard AA:  H_MSE occurred at resseq positions:  [307, 388, 427]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1EM2
nchck =  211 nres =  214
	3TEG 	Calculation done: 1.78359096314 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3AU5 	Calculation done: 1.90249702735 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2A01 	Calculation done: 2.02140309156 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BO5 	Calculation done: 2.14030915577 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2BZX 	Calculation done: 2.25921521998 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1MIL 	Calculation done: 2.37812128419 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RCQ 	Calculation done: 2.49702734839 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2PE4 	Calculation done: 2.6159334126 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3T7L 	Calculation done: 2.73483947681 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1XM9 	Calculation done: 2.85374554102 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2NZI 	Calculation done: 2.97265160523 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NF1 	Calculation done: 3.09155766944 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VH7 	Calculation done: 3.21046373365 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3IAR 	Calculation done: 3.32936979786 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WJY 	Calculation done: 3.44827586207 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1SMB 	Calculation done: 3.56718192628 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1SMB
non-standard AA:  H_OCS occurred at resseq positions:  [32, 63]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3U74 	Calculation done: 3.68608799049 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XU3 	Calculation done: 3.8049940547 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1XMK 	Calculation done: 3.92390011891 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3MB3 	Calculation done: 4.04280618312 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2D7I 	Calculation done: 4.16171224732 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1JQE 	Calculation done: 4.28061831153 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3H63 	Calculation done: 4.39952437574 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2EC8 	Calculation done: 4.51843043995 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NFY 	Calculation done: 4.63733650416 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2PET 	Calculation done: 4.75624256837 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2I7V 	Calculation done: 4.87514863258 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1BIK 	Calculation done: 4.99405469679 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3P1X 	Calculation done: 5.112960761 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3P1X
non-standard AA:  H_MSE occurred at resseq positions:  [530, 557]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3P1X
nchck =  68 nres =  70
	3A1B 	Calculation done: 5.23186682521 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3A1A 	Calculation done: 5.35077288942 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1GGZ 	Calculation done: 5.46967895363 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3K77 	Calculation done: 5.58858501784 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WA0 	Calculation done: 5.70749108205 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===============ResidueDepth Checking Issue for PDB ID: 2WA0
nchck =  203 nres =  204
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2WA0
nchck =  203 nres =  204
	3FY1 	Calculation done: 5.82639714625 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3S4E 	Calculation done: 5.94530321046 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2NQ3 	Calculation done: 6.06420927467 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3H8Z 	Calculation done: 6.18311533888 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3H8Z
non-standard AA:  H_MSE occurred at resseq positions:  [97, 98]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2X5Y 	Calculation done: 6.30202140309 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EHR 	Calculation done: 6.4209274673 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3EHR
non-standard AA:  H_MSE occurred at resseq positions:  [44, 124, 179]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1WDY 	Calculation done: 6.53983353151 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2SHP 	Calculation done: 6.65873959572 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4EJN 	Calculation done: 6.77764565993 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1LN1 	Calculation done: 6.89655172414 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GLK 	Calculation done: 7.01545778835 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1UPL 	Calculation done: 7.13436385256 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1UPL
non-standard AA:  H_MSE occurred at resseq positions:  [23, 50, 129, 146, 175, 246, 259, 260]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2I53 	Calculation done: 7.25326991677 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3L5K 	Calculation done: 7.37217598098 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OJQ 	Calculation done: 7.49108204518 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2OJQ
non-standard AA:  H_MSE occurred at resseq positions:  [385, 543, 580, 639]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2OJQ
nchck =  339 nres =  343
	3L5I 	Calculation done: 7.60998810939 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3L5I
non-standard AA:  H_MSE occurred at resseq positions:  [406, 416, 567, 570]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3L5I
nchck =  286 nres =  290
	3HYG 	Calculation done: 7.7288941736 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2V77 	Calculation done: 7.84780023781 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2V76 	Calculation done: 7.96670630202 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OUD 	Calculation done: 8.08561236623 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2IC1 	Calculation done: 8.20451843044 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1SBX 	Calculation done: 8.32342449465 %
Using Ca-Ca distance criterion for DistMatrix Calculation
non-standard AA happens at position  3 but out of comparison region. resseq position saved for nAccess analysis


=============Warning: non-standard Amino Acid occuring
pdb ID:  1SBX
non-standard AA:  H_MSE occurred at resseq positions:  [90, 92, 164]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EAZ 	Calculation done: 8.44233055886 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3O33 	Calculation done: 8.56123662307 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1O3X 	Calculation done: 8.68014268728 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UEM 	Calculation done: 8.79904875149 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EAP 	Calculation done: 8.9179548157 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WWE 	Calculation done: 9.0368608799 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2HHL 	Calculation done: 9.15576694411 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3O3U 	Calculation done: 9.27467300832 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1WMA 	Calculation done: 9.39357907253 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FBY 	Calculation done: 9.51248513674 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2PPN 	Calculation done: 9.63139120095 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2PPL 	Calculation done: 9.75029726516 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1R2D 	Calculation done: 9.86920332937 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1GQV 	Calculation done: 9.98810939358 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===============ResidueDepth Checking Issue for PDB ID: 1GQV
nchck =  134 nres =  135
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1GQV
nchck =  134 nres =  135
	2VM5 	Calculation done: 10.1070154578 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZT3 	Calculation done: 10.225921522 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2YU1 	Calculation done: 10.3448275862 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1L8J 	Calculation done: 10.4637336504 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2IQC 	Calculation done: 10.5826397146 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XRI 	Calculation done: 10.7015457788 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3OLH 	Calculation done: 10.820451843 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2V9S 	Calculation done: 10.9393579073 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2V9S
non-standard AA:  H_CSW occurred at resseq positions:  [386]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2V9S
nchck =  206 nres =  207
	2IQJ 	Calculation done: 11.0582639715 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3OLC 	Calculation done: 11.1771700357 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3OLC
non-standard AA:  H_MSE occurred at resseq positions:  [88, 104, 106, 130, 131, 192, 230, 235]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XRC 	Calculation done: 11.2960760999 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2H14 	Calculation done: 11.4149821641 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3SHU 	Calculation done: 11.5338882283 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2EVA 	Calculation done: 11.6527942925 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1L8R 	Calculation done: 11.7717003567 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1L8R
non-standard AA:  H_MSE occurred at resseq positions:  [190]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1L8R
nchck =  98 nres =  99
	2I5F 	Calculation done: 11.8906064209 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QK4 	Calculation done: 12.0095124851 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2HC1 	Calculation done: 12.1284185493 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1CS8 	Calculation done: 12.2473246136 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1CS8
nchck =  315 nres =  316
	1DXS 	Calculation done: 12.3662306778 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1IMJ 	Calculation done: 12.485136742 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Q8K 	Calculation done: 12.6040428062 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LJW 	Calculation done: 12.7229488704 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LJU 	Calculation done: 12.8418549346 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WEF 	Calculation done: 12.9607609988 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2HBT 	Calculation done: 13.079667063 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FUN 	Calculation done: 13.1985731272 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QK0 	Calculation done: 13.3174791914 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2QK0
non-standard AA:  H_MSE occurred at resseq positions:  [97]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2QK0
nchck =  70 nres =  71
	2OBI 	Calculation done: 13.4363852556 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2BK8 	Calculation done: 13.5552913199 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GEB 	Calculation done: 13.6741973841 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OBD 	Calculation done: 13.7931034483 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1NST 	Calculation done: 13.9120095125 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2ICC 	Calculation done: 14.0309155767 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===============ResidueDepth Checking Issue for PDB ID: 2ICC
nchck =  118 nres =  119
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2ICC
nchck =  118 nres =  119
	2QNK 	Calculation done: 14.1498216409 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2QNK
non-standard AA:  H_MSE occurred at resseq positions:  [27, 35, 62, 124, 178, 181, 241]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2F4W 	Calculation done: 14.2687277051 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2JE0 	Calculation done: 14.3876337693 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZS9 	Calculation done: 14.5065398335 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1ZS9
non-standard AA:  H_MSE occurred at resseq positions:  [89, 101, 117, 127, 147]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2BZG 	Calculation done: 14.6254458977 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2BZG
non-standard AA:  H_MSE occurred at resseq positions:  [76, 148, 170]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3E7E 	Calculation done: 14.744351962 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3Q2U 	Calculation done: 14.8632580262 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1XCR 	Calculation done: 14.9821640904 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1SRA 	Calculation done: 15.1010701546 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FK2 	Calculation done: 15.2199762188 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2ZFU 	Calculation done: 15.338882283 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3PB6 	Calculation done: 15.4577883472 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3R27 	Calculation done: 15.5766944114 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3Q2E 	Calculation done: 15.6956004756 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2JLL 	Calculation done: 15.8145065398 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VUW 	Calculation done: 15.933412604 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2VUW
non-standard AA:  H_MSE occurred at resseq positions:  [615, 706, 725, 752, 756, 767, 781]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2VUW
nchck =  322 nres =  329
	4DOU 	Calculation done: 16.0523186683 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1XQR 	Calculation done: 16.1712247325 %
Using Ca-Ca distance criterion for DistMatrix Calculation
non-standard AA happens at position  19 but out of comparison region. resseq position saved for nAccess analysis


=============Warning: non-standard Amino Acid occuring
pdb ID:  1XQR
non-standard AA:  H_MSE occurred at resseq positions:  [83, 93, 104, 134, 146, 236, 239, 271, 273]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1XQR
nchck =  259 nres =  258
	3PBH 	Calculation done: 16.2901307967 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1B6A 	Calculation done: 16.4090368609 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1N5U 	Calculation done: 16.5279429251 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZSQ 	Calculation done: 16.6468489893 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1X8B 	Calculation done: 16.7657550535 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3DKB 	Calculation done: 16.8846611177 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3OBS 	Calculation done: 17.0035671819 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NBI 	Calculation done: 17.1224732461 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3NBI
non-standard AA:  H_MSE occurred at resseq positions:  [25, 48, 134, 136, 149]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1BD8 	Calculation done: 17.2413793103 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2CG7 	Calculation done: 17.3602853746 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3DKM 	Calculation done: 17.4791914388 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BJ5 	Calculation done: 17.598097503 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1D3G 	Calculation done: 17.7170035672 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XIO 	Calculation done: 17.8359096314 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1TR2 	Calculation done: 17.9548156956 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1TR2
non-standard AA:  H_MSE occurred at resseq positions:  [1, 26, 74, 94, 154, 168, 171, 174, 190, 195, 209, 237, 266, 327, 331, 350, 377, 533, 534, 587, 591, 698, 709, 741, 748, 797, 799, 898, 899, 900, 926, 930, 933, 1005, 1022, 1031]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WNG 	Calculation done: 18.0737217598 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1CZA 	Calculation done: 18.192627824 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OB0 	Calculation done: 18.3115338882 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2OB0
nchck =  151 nres =  153
	3LLP 	Calculation done: 18.4304399524 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2DHO 	Calculation done: 18.5493460166 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WNP 	Calculation done: 18.6682520809 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FRR 	Calculation done: 18.7871581451 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1MJ4 	Calculation done: 18.9060642093 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1IPC 	Calculation done: 19.0249702735 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2ADO 	Calculation done: 19.1438763377 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1M6I 	Calculation done: 19.2627824019 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3OP8 	Calculation done: 19.3816884661 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1BZ4 	Calculation done: 19.5005945303 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2V4U 	Calculation done: 19.6195005945 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Y9U 	Calculation done: 19.7384066587 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1S1E 	Calculation done: 19.8573127229 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1F42 	Calculation done: 19.9762187872 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VXP 	Calculation done: 20.0951248514 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3S0K 	Calculation done: 20.2140309156 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3CH4 	Calculation done: 20.3329369798 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2GEE 	Calculation done: 20.451843044 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GIX 	Calculation done: 20.5707491082 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2H2T 	Calculation done: 20.6896551724 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3MHD 	Calculation done: 20.8085612366 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3L1X 	Calculation done: 20.9274673008 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LQ9 	Calculation done: 21.046373365 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3LQ9
non-standard AA:  H_MSE occurred at resseq positions:  [97, 119]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3LQ9
nchck =  108 nres =  109
	2IJA 	Calculation done: 21.1652794293 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2IJA
non-standard AA:  H_MSE occurred at resseq positions:  [48, 88, 105, 131, 205]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LQH 	Calculation done: 21.2841854935 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UWT 	Calculation done: 21.4030915577 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3UWT
non-standard AA:  H_MSE occurred at resseq positions:  [128, 160, 167, 190, 194, 287, 307]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3UWT
nchck =  189 nres =  191
	2XB1 	Calculation done: 21.5219976219 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1R6J 	Calculation done: 21.6409036861 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OIT 	Calculation done: 21.7598097503 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1LCF 	Calculation done: 21.8787158145 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QKQ 	Calculation done: 21.9976218787 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3L11 	Calculation done: 22.1165279429 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XVS 	Calculation done: 22.2354340071 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2P0D 	Calculation done: 22.3543400713 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1MJS 	Calculation done: 22.4732461356 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XY2 	Calculation done: 22.5921521998 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QXI 	Calculation done: 22.711058264 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QS9 	Calculation done: 22.8299643282 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2QS9
non-standard AA:  H_MSE occurred at resseq positions:  [44, 59, 82]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1M61 	Calculation done: 22.9488703924 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2IMG 	Calculation done: 23.0677764566 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2IMG
non-standard AA:  H_MSE occurred at resseq positions:  [105]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1I1N 	Calculation done: 23.1866825208 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3MCF 	Calculation done: 23.305588585 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QIJ 	Calculation done: 23.4244946492 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZA4 	Calculation done: 23.5434007134 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1ZA4
non-standard AA:  H_MSE occurred at resseq positions:  [79, 156]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3E9V 	Calculation done: 23.6623067776 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3E9V
non-standard AA:  H_MSE occurred at resseq positions:  [10, 75]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1B1C 	Calculation done: 23.7812128419 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QJZ 	Calculation done: 23.9001189061 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2QJZ
non-standard AA:  H_MSE occurred at resseq positions:  [20, 48, 50, 85]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3KZD 	Calculation done: 24.0190249703 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2F8Y 	Calculation done: 24.1379310345 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1L2H 	Calculation done: 24.2568370987 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1W24 	Calculation done: 24.3757431629 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3AVS 	Calculation done: 24.4946492271 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2JA4 	Calculation done: 24.6135552913 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1UMK 	Calculation done: 24.7324613555 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1FPZ 	Calculation done: 24.8513674197 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3II7 	Calculation done: 24.9702734839 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2YCU 	Calculation done: 25.0891795482 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZGK 	Calculation done: 25.2080856124 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1ZGK
non-standard AA:  H_MSE occurred at resseq positions:  [399, 409, 456, 499, 503, 550, 597]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1ZGK
nchck =  281 nres =  288
	1XGW 	Calculation done: 25.3269916766 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LFM 	Calculation done: 25.4458977408 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3D3M 	Calculation done: 25.564803805 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VJ2 	Calculation done: 25.6837098692 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3S6W 	Calculation done: 25.8026159334 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3M66 	Calculation done: 25.9215219976 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BWY 	Calculation done: 26.0404280618 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2NTE 	Calculation done: 26.159334126 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3N8I 	Calculation done: 26.2782401902 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FG7 	Calculation done: 26.3971462545 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2GRY 	Calculation done: 26.5160523187 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1NAF 	Calculation done: 26.6349583829 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1NAF
non-standard AA:  H_MSE occurred at resseq positions:  [177, 200, 208, 231, 233, 249, 259]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1NAF
nchck =  117 nres =  124
	2ZB4 	Calculation done: 26.7538644471 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2X6U 	Calculation done: 26.8727705113 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3G5C 	Calculation done: 26.9916765755 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2I9A 	Calculation done: 27.1105826397 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OSA 	Calculation done: 27.2294887039 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3KS9 	Calculation done: 27.3483947681 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2H3L 	Calculation done: 27.4673008323 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1RGP 	Calculation done: 27.5862068966 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LF5 	Calculation done: 27.7051129608 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1Z4R 	Calculation done: 27.824019025 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2YXF 	Calculation done: 27.9429250892 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2A38 	Calculation done: 28.0618311534 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1SQW 	Calculation done: 28.1807372176 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1EWF 	Calculation done: 28.2996432818 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2J3S 	Calculation done: 28.418549346 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3C5V 	Calculation done: 28.5374554102 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1N6A 	Calculation done: 28.6563614744 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1N6A
non-standard AA:  H_MSE occurred at resseq positions:  [139, 164, 173, 185, 242, 307]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1N6A
nchck =  228 nres =  229
	2ESK 	Calculation done: 28.7752675386 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Z6O 	Calculation done: 28.8941736029 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2JAK 	Calculation done: 29.0130796671 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1WAK 	Calculation done: 29.1319857313 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QOR 	Calculation done: 29.2508917955 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3QOR
non-standard AA:  H_CSX occurred at resseq positions:  [188]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3QOR
nchck =  115 nres =  116
	1HDO 	Calculation done: 29.3697978597 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VC8 	Calculation done: 29.4887039239 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1H6G 	Calculation done: 29.6076099881 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1H6G
non-standard AA:  H_MSE occurred at resseq positions:  [387, 452, 484, 560, 584, 606, 631]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1H6G
nchck =  248 nres =  255
	1ATZ 	Calculation done: 29.7265160523 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2G62 	Calculation done: 29.8454221165 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2D48 	Calculation done: 29.9643281807 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3C5N 	Calculation done: 30.0832342449 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3C5H 	Calculation done: 30.2021403092 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3C5K 	Calculation done: 30.3210463734 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===============ResidueDepth Checking Issue for PDB ID: 3C5K
nchck =  107 nres =  108
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3C5K
nchck =  107 nres =  108
	1T77 	Calculation done: 30.4399524376 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3ZSJ 	Calculation done: 30.5588585018 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NXP 	Calculation done: 30.677764566 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3U2P 	Calculation done: 30.7966706302 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NXU 	Calculation done: 30.9155766944 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2II0 	Calculation done: 31.0344827586 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3HM5 	Calculation done: 31.1533888228 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2J8B 	Calculation done: 31.272294887 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3PUC 	Calculation done: 31.3912009512 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2B3Y 	Calculation done: 31.5101070155 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3E46 	Calculation done: 31.6290130797 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Z66 	Calculation done: 31.7479191439 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1R1H 	Calculation done: 31.8668252081 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3PUA 	Calculation done: 31.9857312723 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RQ4 	Calculation done: 32.1046373365 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3MDM 	Calculation done: 32.2235434007 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1I2T 	Calculation done: 32.3424494649 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1FAO 	Calculation done: 32.4613555291 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2CXY 	Calculation done: 32.5802615933 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2CXY
non-standard AA:  H_MSE occurred at resseq positions:  [27]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1WOJ 	Calculation done: 32.6991676576 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UMS 	Calculation done: 32.8180737218 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3SH4 	Calculation done: 32.936979786 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1MWP 	Calculation done: 33.0558858502 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UMH 	Calculation done: 33.1747919144 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EP0 	Calculation done: 33.2936979786 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1RLW 	Calculation done: 33.4126040428 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3Q6L 	Calculation done: 33.531510107 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1I27 	Calculation done: 33.6504161712 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2BRF 	Calculation done: 33.7693222354 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4ASC 	Calculation done: 33.8882282996 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  4ASC
non-standard AA:  H_CSO occurred at resseq positions:  [340]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 4ASC
nchck =  307 nres =  308
	1CDY 	Calculation done: 34.0071343639 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2F1W 	Calculation done: 34.1260404281 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RC3 	Calculation done: 34.2449464923 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3RC3
non-standard AA:  H_MSE occurred at resseq positions:  [132, 198, 278, 295, 330, 333, 429, 486, 519, 551, 626, 646, 648, 679]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3RC3
nchck =  593 nres =  594
	3SHT 	Calculation done: 34.3638525565 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2C46 	Calculation done: 34.4827586207 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BIY 	Calculation done: 34.6016646849 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2C43 	Calculation done: 34.7205707491 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2B29 	Calculation done: 34.8394768133 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3PYC 	Calculation done: 34.9583828775 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1LF7 	Calculation done: 35.0772889417 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3T6P 	Calculation done: 35.1961950059 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FVY 	Calculation done: 35.3151010702 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3U0R 	Calculation done: 35.4340071344 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1T5I 	Calculation done: 35.5529131986 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2PQ8 	Calculation done: 35.6718192628 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3AXC 	Calculation done: 35.790725327 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1EG3 	Calculation done: 35.9096313912 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1UCH 	Calculation done: 36.0285374554 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VGQ 	Calculation done: 36.1474435196 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2D0T 	Calculation done: 36.2663495838 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QXL 	Calculation done: 36.385255648 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NMW 	Calculation done: 36.5041617122 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3NMW
non-standard AA:  H_MSE occurred at resseq positions:  [406, 438, 454, 466, 485, 503, 522, 526, 573, 701, 706, 717, 720, 730]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3NMW
nchck =  314 nres =  328
	1WOU 	Calculation done: 36.6230677765 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VGE 	Calculation done: 36.7419738407 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4AAP 	Calculation done: 36.8608799049 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZRH 	Calculation done: 36.9797859691 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3HQC 	Calculation done: 37.0986920333 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3HQC
non-standard AA:  H_MSE occurred at resseq positions:  [1404]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3HQC
nchck =  139 nres =  140
	1TH0 	Calculation done: 37.2175980975 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EQM 	Calculation done: 37.3365041617 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2ZNR 	Calculation done: 37.4554102259 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1XKS 	Calculation done: 37.5743162901 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1NM8 	Calculation done: 37.6932223543 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GM3 	Calculation done: 37.8121284185 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1E8Y 	Calculation done: 37.9310344828 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1SNZ 	Calculation done: 38.049940547 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3AJ4 	Calculation done: 38.1688466112 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OZO 	Calculation done: 38.2877526754 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1G8I 	Calculation done: 38.4066587396 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FM0 	Calculation done: 38.5255648038 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1WER 	Calculation done: 38.644470868 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1XK5 	Calculation done: 38.7633769322 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2E3H 	Calculation done: 38.8822829964 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2E3I 	Calculation done: 39.0011890606 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2E3N 	Calculation done: 39.1200951249 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WM8 	Calculation done: 39.2390011891 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FCI 	Calculation done: 39.3579072533 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2NMS 	Calculation done: 39.4768133175 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2PMV 	Calculation done: 39.5957193817 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Z14 	Calculation done: 39.7146254459 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3HIL 	Calculation done: 39.8335315101 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZR3 	Calculation done: 39.9524375743 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3L4H 	Calculation done: 40.0713436385 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3L4H
non-standard AA:  H_MSE occurred at resseq positions:  [986, 1012]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3L4H
nchck =  107 nres =  109
	1Z70 	Calculation done: 40.1902497027 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1Z70
non-standard AA:  H_OCS occurred at resseq positions:  [1336, 1341]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1Z70
nchck =  274 nres =  276
	2WVI 	Calculation done: 40.3091557669 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3JZY 	Calculation done: 40.4280618312 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1HH8 	Calculation done: 40.5469678954 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1M8Z 	Calculation done: 40.6658739596 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1OXZ 	Calculation done: 40.7847800238 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3L4Y 	Calculation done: 40.903686088 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1VHR 	Calculation done: 41.0225921522 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1RYO 	Calculation done: 41.1414982164 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RLE 	Calculation done: 41.2604042806 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3RLE
non-standard AA:  H_MSE occurred at resseq positions:  [69, 143]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1UG3 	Calculation done: 41.3793103448 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OHF 	Calculation done: 41.498216409 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RLO 	Calculation done: 41.6171224732 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3KT9 	Calculation done: 41.7360285375 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2ZG1 	Calculation done: 41.8549346017 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2C0M 	Calculation done: 41.9738406659 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1YW9 	Calculation done: 42.0927467301 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1R5L 	Calculation done: 42.2116527943 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1R5L
non-standard AA:  H_MSE occurred at resseq positions:  [209, 224, 252, 264]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1R5L
nchck =  247 nres =  248
	1BYW 	Calculation done: 42.3305588585 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Y1M 	Calculation done: 42.4494649227 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1I1J 	Calculation done: 42.5683709869 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2AR5 	Calculation done: 42.6872770511 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XZG 	Calculation done: 42.8061831153 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3U5L 	Calculation done: 42.9250891795 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Q5X 	Calculation done: 43.0439952438 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RGK 	Calculation done: 43.162901308 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3SD4 	Calculation done: 43.2818073722 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1UNQ 	Calculation done: 43.4007134364 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3DAD 	Calculation done: 43.5196195006 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OAY 	Calculation done: 43.6385255648 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3P4L 	Calculation done: 43.757431629 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1D5R 	Calculation done: 43.8763376932 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1X9D 	Calculation done: 43.9952437574 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1IJB 	Calculation done: 44.1141498216 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1T3Y 	Calculation done: 44.2330558859 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1Q1C 	Calculation done: 44.3519619501 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1W0H 	Calculation done: 44.4708680143 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1W0H
non-standard AA:  H_MSE occurred at resseq positions:  [214, 235, 280, 286, 309, 322]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1W0H
nchck =  194 nres =  200
	3SR4 	Calculation done: 44.5897740785 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1FSU 	Calculation done: 44.7086801427 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2IBN 	Calculation done: 44.8275862069 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2IBN
non-standard AA:  H_MSE occurred at resseq positions:  [37, 47, 71, 74, 178, 190, 198, 202, 216, 242]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1IJQ 	Calculation done: 44.9464922711 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2BX6 	Calculation done: 45.0653983353 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1HZF 	Calculation done: 45.1843043995 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1HZF
non-standard AA:  H_MSE occurred at resseq positions:  [996, 1109, 1199, 1201, 1262]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1HZF
nchck =  297 nres =  302
	3P3Y 	Calculation done: 45.3032104637 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3SMZ 	Calculation done: 45.4221165279 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3E0C 	Calculation done: 45.5410225922 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2P8V 	Calculation done: 45.6599286564 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1LB4 	Calculation done: 45.7788347206 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3V55 	Calculation done: 45.8977407848 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4A3P 	Calculation done: 46.016646849 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1KWM 	Calculation done: 46.1355529132 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1BKR 	Calculation done: 46.2544589774 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2P8E 	Calculation done: 46.3733650416 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2P8E
non-standard AA:  H_OCS occurred at resseq positions:  [242]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2BBS 	Calculation done: 46.4922711058 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3HMS 	Calculation done: 46.61117717 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Y7B 	Calculation done: 46.7300832342 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WZB 	Calculation done: 46.8489892985 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1XTI 	Calculation done: 46.9678953627 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1YYH 	Calculation done: 47.0868014269 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1KTH 	Calculation done: 47.2057074911 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XES 	Calculation done: 47.3246135553 %
Using Ca-Ca distance criterion for DistMatrix Calculation
non-standard AA happens at position  198 but out of comparison region. resseq position saved for nAccess analysis

non-standard AA happens at position  200 but out of comparison region. resseq position saved for nAccess analysis


=============Warning: non-standard Amino Acid occuring
pdb ID:  2XES
non-standard AA:  H_MSE occurred at resseq positions:  [555, 565, 588, 596, 614, 660, 718, 720]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2XES
nchck =  143 nres =  149
	3D59 	Calculation done: 47.4435196195 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1K0M 	Calculation done: 47.5624256837 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2HYV 	Calculation done: 47.6813317479 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2O3H 	Calculation done: 47.8002378121 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FRG 	Calculation done: 47.9191438763 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GA3 	Calculation done: 48.0380499405 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3IJC 	Calculation done: 48.1569560048 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2H8H 	Calculation done: 48.275862069 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2H8H
non-standard AA:  H_PTR occurred at resseq positions:  [527]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3IEI 	Calculation done: 48.3947681332 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2H8L 	Calculation done: 48.5136741974 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2H8L
non-standard AA:  H_MSE occurred at resseq positions:  [227, 247, 284, 285, 338]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2H8L
nchck =  227 nres =  230
	4DDP 	Calculation done: 48.6325802616 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EGN 	Calculation done: 48.7514863258 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2AG4 	Calculation done: 48.87039239 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UI4 	Calculation done: 48.9892984542 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===============ResidueDepth Checking Issue for PDB ID: 3UI4
nchck =  97 nres =  98
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3UI4
nchck =  97 nres =  98
	3FIA 	Calculation done: 49.1082045184 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3FIA
non-standard AA:  H_MSE occurred at resseq positions:  [67, 73, 82, 102]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2D4H 	Calculation done: 49.2271105826 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1Z5V 	Calculation done: 49.3460166468 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2HDZ 	Calculation done: 49.4649227111 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3ANS 	Calculation done: 49.5838287753 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VYI 	Calculation done: 49.7027348395 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1JHJ 	Calculation done: 49.8216409037 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1CY5 	Calculation done: 49.9405469679 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WQ9 	Calculation done: 50.0594530321 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GAX 	Calculation done: 50.1783590963 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2V5T 	Calculation done: 50.2972651605 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3IJ8 	Calculation done: 50.4161712247 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3IJ8
non-standard AA:  H_PCA occurred at resseq positions:  [1]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2V5O 	Calculation done: 50.5350772889 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1UUH 	Calculation done: 50.6539833532 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1UUH
non-standard AA:  H_MSE occurred at resseq positions:  [63, 66]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2O36 	Calculation done: 50.7728894174 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BVO 	Calculation done: 50.8917954816 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3BVO
non-standard AA:  H_MSE occurred at resseq positions:  [77, 157, 166, 181, 218]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3BVO
nchck =  192 nres =  193
	3PT3 	Calculation done: 51.0107015458 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3ZYQ 	Calculation done: 51.12960761 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3PE6 	Calculation done: 51.2485136742 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1U6T 	Calculation done: 51.3674197384 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QFZ 	Calculation done: 51.4863258026 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1WAO 	Calculation done: 51.6052318668 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1WAO
nchck =  0 nres =  471
	3PE0 	Calculation done: 51.724137931 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FZP 	Calculation done: 51.8430439952 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1WAR 	Calculation done: 51.9619500595 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BQ7 	Calculation done: 52.0808561237 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EAE 	Calculation done: 52.1997621879 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3F04 	Calculation done: 52.3186682521 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2ESB 	Calculation done: 52.4375743163 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1QUB 	Calculation done: 52.5564803805 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GFC 	Calculation done: 52.6753864447 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1NUG 	Calculation done: 52.7942925089 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3PRY 	Calculation done: 52.9131985731 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BHD 	Calculation done: 53.0321046373 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3BHD
non-standard AA:  H_MSE occurred at resseq positions:  [1, 48, 181]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3BHD
nchck =  208 nres =  209
	3APA 	Calculation done: 53.1510107015 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Z15 	Calculation done: 53.2699167658 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1FL0 	Calculation done: 53.38882283 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LLH 	Calculation done: 53.5077288942 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BHY 	Calculation done: 53.6266349584 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2NSM 	Calculation done: 53.7455410226 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Z80 	Calculation done: 53.8644470868 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2YLF 	Calculation done: 53.983353151 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3CEG 	Calculation done: 54.1022592152 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3CEG
non-standard AA:  H_MSE occurred at resseq positions:  [4504, 4514, 4532, 4581, 4712, 4739, 4762]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3CEG
nchck =  285 nres =  292
	3TU1 	Calculation done: 54.2211652794 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1FO3 	Calculation done: 54.3400713436 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BCZ 	Calculation done: 54.4589774078 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3BCZ
non-standard AA:  H_MSE occurred at resseq positions:  [118, 122, 135, 144, 219, 221, 264, 266]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2YLM 	Calculation done: 54.5778834721 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3IUG 	Calculation done: 54.6967895363 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FH1 	Calculation done: 54.8156956005 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1Q1Q 	Calculation done: 54.9346016647 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2D58 	Calculation done: 55.0535077289 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BCH 	Calculation done: 55.1724137931 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3CW3 	Calculation done: 55.2913198573 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3T5O 	Calculation done: 55.4102259215 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2IHD 	Calculation done: 55.5291319857 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3AY5 	Calculation done: 55.6480380499 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2P57 	Calculation done: 55.7669441141 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4A0P 	Calculation done: 55.8858501784 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FK9 	Calculation done: 56.0047562426 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RK6 	Calculation done: 56.1236623068 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1IFR 	Calculation done: 56.242568371 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1R8M 	Calculation done: 56.3614744352 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1R8M
non-standard AA:  H_CME occurred at resseq positions:  [174]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1A6Q 	Calculation done: 56.4803804994 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1JWF 	Calculation done: 56.5992865636 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3IU1 	Calculation done: 56.7181926278 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3TC5 	Calculation done: 56.837098692 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3IU5 	Calculation done: 56.9560047562 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QE2 	Calculation done: 57.0749108205 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2A2C 	Calculation done: 57.1938168847 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3D2N 	Calculation done: 57.3127229489 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1MF7 	Calculation done: 57.4316290131 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1KO9 	Calculation done: 57.5505350773 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2CBZ 	Calculation done: 57.6694411415 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2A2K 	Calculation done: 57.7883472057 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1EVS 	Calculation done: 57.9072532699 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3S7R 	Calculation done: 58.0261593341 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3S7R
non-standard AA:  H_MSE occurred at resseq positions:  [71, 102]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3S7R
nchck =  79 nres =  80
	2J5W 	Calculation done: 58.1450653983 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XUB 	Calculation done: 58.2639714625 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LUC 	Calculation done: 58.3828775268 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OEW 	Calculation done: 58.501783591 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3D2Q 	Calculation done: 58.6206896552 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3VHV 	Calculation done: 58.7395957194 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EQ5 	Calculation done: 58.8585017836 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UE2 	Calculation done: 58.9774078478 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3UE2
non-standard AA:  H_MSE occurred at resseq positions:  [450, 452, 464, 469]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3UE2
nchck =  113 nres =  117
	3HBW 	Calculation done: 59.096313912 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QQI 	Calculation done: 59.2152199762 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2GGZ 	Calculation done: 59.3341260404 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NHN 	Calculation done: 59.4530321046 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2B4Y 	Calculation done: 59.5719381688 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2B4Y
non-standard AA:  H_MSE occurred at resseq positions:  [40, 109, 259]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QQO 	Calculation done: 59.6908442331 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2GGT 	Calculation done: 59.8097502973 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2I75 	Calculation done: 59.9286563615 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2P26 	Calculation done: 60.0475624257 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3Q93 	Calculation done: 60.1664684899 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2W50 	Calculation done: 60.2853745541 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2W51 	Calculation done: 60.4042806183 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QQR 	Calculation done: 60.5231866825 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2QQR
non-standard AA:  H_MSE occurred at resseq positions:  [896, 985]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2QQR
nchck =  116 nres =  118
	3R6N 	Calculation done: 60.6420927467 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XYC 	Calculation done: 60.7609988109 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FVV 	Calculation done: 60.8799048751 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZD8 	Calculation done: 60.9988109394 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1LSL 	Calculation done: 61.1177170036 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1M9I 	Calculation done: 61.2366230678 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3H1D 	Calculation done: 61.355529132 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3F7Q 	Calculation done: 61.4744351962 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3SW0 	Calculation done: 61.5933412604 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1N1F 	Calculation done: 61.7122473246 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OK5 	Calculation done: 61.8311533888 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1NCN 	Calculation done: 61.950059453 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1M9Z 	Calculation done: 62.0689655172 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LS8 	Calculation done: 62.1878715815 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3C5E 	Calculation done: 62.3067776457 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3KNV 	Calculation done: 62.4256837099 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZJK 	Calculation done: 62.5445897741 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GKJ 	Calculation done: 62.6634958383 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3TZM 	Calculation done: 62.7824019025 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3R9M 	Calculation done: 62.9013079667 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1L3K 	Calculation done: 63.0202140309 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1KHB 	Calculation done: 63.1391200951 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1WCH 	Calculation done: 63.2580261593 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3OUI 	Calculation done: 63.3769322235 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3I2N 	Calculation done: 63.4958382878 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3SWR 	Calculation done: 63.614744352 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FDV 	Calculation done: 63.7336504162 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2YW8 	Calculation done: 63.8525564804 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3I2V 	Calculation done: 63.9714625446 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3I2V
non-standard AA:  H_MSE occurred at resseq positions:  [113]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1IAP 	Calculation done: 64.0903686088 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2IYK 	Calculation done: 64.209274673 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2PXX 	Calculation done: 64.3281807372 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3N5N 	Calculation done: 64.4470868014 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4D8O 	Calculation done: 64.5659928656 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3ZRH 	Calculation done: 64.6848989298 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4D8K 	Calculation done: 64.8038049941 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4ELJ 	Calculation done: 64.9227110583 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  4ELJ
non-standard AA:  H_TPO occurred at resseq positions:  [373]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2B3H 	Calculation done: 65.0416171225 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2V9K 	Calculation done: 65.1605231867 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QWL 	Calculation done: 65.2794292509 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1QB0 	Calculation done: 65.3983353151 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FB2 	Calculation done: 65.5172413793 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3FB2
non-standard AA:  H_MSE occurred at resseq positions:  [1352, 1439, 1440, 1461, 1540]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3FB2
nchck =  180 nres =  185
	2XY1 	Calculation done: 65.6361474435 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1W6K 	Calculation done: 65.7550535077 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QQ8 	Calculation done: 65.8739595719 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3DDU 	Calculation done: 65.9928656361 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NR5 	Calculation done: 66.1117717004 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3MEW 	Calculation done: 66.2306777646 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QWP 	Calculation done: 66.3495838288 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3ORH 	Calculation done: 66.468489893 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3T7A 	Calculation done: 66.5873959572 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RBS 	Calculation done: 66.7063020214 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2W5Y 	Calculation done: 66.8252080856 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VAC 	Calculation done: 66.9441141498 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1QDD 	Calculation done: 67.063020214 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2BOU 	Calculation done: 67.1819262782 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1SHU 	Calculation done: 67.3008323424 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3CXL 	Calculation done: 67.4197384067 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3K1Z 	Calculation done: 67.5386444709 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3K1Z
non-standard AA:  H_MSE occurred at resseq positions:  [7, 182, 206]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WKQ 	Calculation done: 67.6575505351 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3A77 	Calculation done: 67.7764565993 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3A77
non-standard AA:  H_SEP occurred at resseq positions:  [386, 402]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3A77
nchck =  230 nres =  232
	2A1I 	Calculation done: 67.8953626635 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NGQ 	Calculation done: 68.0142687277 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OPW 	Calculation done: 68.1331747919 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2HW4 	Calculation done: 68.2520808561 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WL1 	Calculation done: 68.3709869203 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4DJX 	Calculation done: 68.4898929845 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1UOH 	Calculation done: 68.6087990488 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1SO7 	Calculation done: 68.727705113 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1IKT 	Calculation done: 68.8466111772 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FOZ 	Calculation done: 68.9655172414 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3S8S 	Calculation done: 69.0844233056 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3V34 	Calculation done: 69.2033293698 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3V33 	Calculation done: 69.322235434 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4DA1 	Calculation done: 69.4411414982 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2CLT 	Calculation done: 69.5600475624 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2V14 	Calculation done: 69.6789536266 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2V14
non-standard AA:  H_MSE occurred at resseq positions:  [1227, 1275]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2V14
nchck =  132 nres =  134
	3KUQ 	Calculation done: 69.7978596908 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3PFY 	Calculation done: 69.9167657551 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3PFY
non-standard AA:  H_MSE occurred at resseq positions:  [191, 218, 239, 248, 252, 285, 288, 291]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3PFY
nchck =  121 nres =  129
	2Z62 	Calculation done: 70.0356718193 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Z63 	Calculation done: 70.1545778835 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QYE 	Calculation done: 70.2734839477 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1JY1 	Calculation done: 70.3923900119 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1JY1
non-standard AA:  H_MSE occurred at resseq positions:  [157, 266, 267, 420, 491, 498, 533, 604]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1JY1
nchck =  430 nres =  434
	3TO8 	Calculation done: 70.5112960761 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3KGR 	Calculation done: 70.6302021403 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1TBF 	Calculation done: 70.7491082045 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3P23 	Calculation done: 70.8680142687 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3V3L 	Calculation done: 70.9869203329 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3V3L
non-standard AA:  H_MSE occurred at resseq positions:  [137, 151]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3V3L
nchck =  81 nres =  83
	3ECR 	Calculation done: 71.1058263971 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3PV7 	Calculation done: 71.2247324614 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1Z6T 	Calculation done: 71.3436385256 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2CE2 	Calculation done: 71.4625445898 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3CQV 	Calculation done: 71.581450654 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3CQV
non-standard AA:  H_MSE occurred at resseq positions:  [386, 407, 447, 477, 486, 503, 541, 567]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3CQV
nchck =  188 nres =  196
	2POM 	Calculation done: 71.7003567182 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1H7S 	Calculation done: 71.8192627824 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1H7S
non-standard AA:  H_MSE occurred at resseq positions:  [136, 184, 312, 362]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EDU 	Calculation done: 71.9381688466 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2F60 	Calculation done: 72.0570749108 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1RXD 	Calculation done: 72.175980975 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1RXD
non-standard AA:  H_MSE occurred at resseq positions:  [16, 123, 155]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1H4A 	Calculation done: 72.2948870392 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3B5H 	Calculation done: 72.4137931034 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EDY 	Calculation done: 72.5326991677 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3POW 	Calculation done: 72.6516052319 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FLG 	Calculation done: 72.7705112961 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2JGN 	Calculation done: 72.8894173603 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3CX2 	Calculation done: 73.0083234245 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3C7X 	Calculation done: 73.1272294887 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2R3A 	Calculation done: 73.2461355529 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2HWY 	Calculation done: 73.3650416171 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EDH 	Calculation done: 73.4839476813 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1JR2 	Calculation done: 73.6028537455 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1P6F 	Calculation done: 73.7217598098 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3O2T 	Calculation done: 73.840665874 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FAU 	Calculation done: 73.9595719382 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1F9P 	Calculation done: 74.0784780024 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZCM 	Calculation done: 74.1973840666 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2PSO 	Calculation done: 74.3162901308 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VZC 	Calculation done: 74.435196195 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3HFW 	Calculation done: 74.5541022592 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3OV6 	Calculation done: 74.6730083234 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1L6J 	Calculation done: 74.7919143876 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1NTY 	Calculation done: 74.9108204518 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3KS3 	Calculation done: 75.0297265161 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2IZR 	Calculation done: 75.1486325803 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1EAZ 	Calculation done: 75.2675386445 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1UZE 	Calculation done: 75.3864447087 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2W0G 	Calculation done: 75.5053507729 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FH7 	Calculation done: 75.6242568371 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4ELL 	Calculation done: 75.7431629013 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Y4T 	Calculation done: 75.8620689655 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1L9L 	Calculation done: 75.9809750297 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3OOI 	Calculation done: 76.0998810939 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3D06 	Calculation done: 76.2187871581 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2PZ1 	Calculation done: 76.3376932224 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3VJ9 	Calculation done: 76.4565992866 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3KJD 	Calculation done: 76.5755053508 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2DH2 	Calculation done: 76.694411415 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2DH2
non-standard AA:  H_MSE occurred at resseq positions:  [355, 383, 388, 406]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RAY 	Calculation done: 76.8133174792 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1H7C 	Calculation done: 76.9322235434 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1H7C
non-standard AA:  H_MSE occurred at resseq positions:  [25, 40, 62, 63]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1HTJ 	Calculation done: 77.0511296076 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1HTJ
non-standard AA:  H_MSE occurred at resseq positions:  [382, 409, 472, 480]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1HTJ
nchck =  178 nres =  182
	3H0H 	Calculation done: 77.1700356718 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZZK 	Calculation done: 77.288941736 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EVI 	Calculation done: 77.4078478002 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BGV 	Calculation done: 77.5267538644 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1WPA 	Calculation done: 77.6456599287 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2DDF 	Calculation done: 77.7645659929 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3I6C 	Calculation done: 77.8834720571 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1PJA 	Calculation done: 78.0023781213 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1AD6 	Calculation done: 78.1212841855 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2GK6 	Calculation done: 78.2401902497 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2NYU 	Calculation done: 78.3590963139 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3O5E 	Calculation done: 78.4780023781 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GF9 	Calculation done: 78.5969084423 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1G55 	Calculation done: 78.7158145065 %
Using Ca-Ca distance criterion for DistMatrix Calculation
non-standard AA happens at position  238 but out of comparison region. resseq position saved for nAccess analysis


=============Warning: non-standard Amino Acid occuring
pdb ID:  1G55
non-standard AA:  H_CSO occurred at resseq positions:  [140, 287]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	4APC 	Calculation done: 78.8347205707 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1AOA 	Calculation done: 78.953626635 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2C60 	Calculation done: 79.0725326992 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2C60
non-standard AA:  H_MSE occurred at resseq positions:  [86, 113]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2C60
nchck =  83 nres =  84
	3O5Q 	Calculation done: 79.1914387634 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1BX4 	Calculation done: 79.3103448276 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3TJM 	Calculation done: 79.4292508918 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RFE 	Calculation done: 79.548156956 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Q4Q 	Calculation done: 79.6670630202 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2Q4Q
nchck =  0 nres =  121
	1R4X 	Calculation done: 79.7859690844 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1TDH 	Calculation done: 79.9048751486 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1MHN 	Calculation done: 80.0237812128 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1DTJ 	Calculation done: 80.1426872771 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2O9S 	Calculation done: 80.2615933413 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2ZKM 	Calculation done: 80.3804994055 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1NF1 	Calculation done: 80.4994054697 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1IGR 	Calculation done: 80.6183115339 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1WLJ 	Calculation done: 80.7372175981 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2GY5 	Calculation done: 80.8561236623 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1FNF 	Calculation done: 80.9750297265 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4DND 	Calculation done: 81.0939357907 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  4DND
non-standard AA:  H_MSE occurred at resseq positions:  [95, 102, 106]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3M03 	Calculation done: 81.2128418549 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2XTP 	Calculation done: 81.3317479191 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2XTP
non-standard AA:  H_MSE occurred at resseq positions:  [81, 138, 157, 160, 199, 207, 247]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3TTJ 	Calculation done: 81.4506539834 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1N45 	Calculation done: 81.5695600476 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4DNL 	Calculation done: 81.6884661118 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  4DNL
non-standard AA:  H_MSE occurred at resseq positions:  [186, 256, 267, 269]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 4DNL
nchck =  133 nres =  137
	1WLZ 	Calculation done: 81.807372176 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FSO 	Calculation done: 81.9262782402 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QJ4 	Calculation done: 82.0451843044 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1TXD 	Calculation done: 82.1640903686 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2X47 	Calculation done: 82.2829964328 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3PD7 	Calculation done: 82.401902497 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NEY 	Calculation done: 82.5208085612 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1BY2 	Calculation done: 82.6397146254 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QT1 	Calculation done: 82.7586206897 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2QT1
non-standard AA:  H_MSE occurred at resseq positions:  [63, 66, 67, 74, 150, 158]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1US0 	Calculation done: 82.8775267539 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===============ResidueDepth Checking Issue for PDB ID: 1US0
nchck =  312 nres =  313
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1US0
nchck =  312 nres =  313
	2ODP 	Calculation done: 82.9964328181 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1P5J 	Calculation done: 83.1153388823 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1Y02 	Calculation done: 83.2342449465 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1JSF 	Calculation done: 83.3531510107 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2ODV 	Calculation done: 83.4720570749 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3V98 	Calculation done: 83.5909631391 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3KQ0 	Calculation done: 83.7098692033 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3KQ0
non-standard AA:  H_PCA occurred at resseq positions:  [1]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2ERF 	Calculation done: 83.8287752675 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FAY 	Calculation done: 83.9476813317 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3FAY
non-standard AA:  H_MSE occurred at resseq positions:  [993, 1002, 1054, 1080, 1102, 1138, 1160, 1196, 1231, 1240]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3FAY
nchck =  368 nres =  378
	2B9E 	Calculation done: 84.066587396 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2YD0 	Calculation done: 84.1854934602 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WO1 	Calculation done: 84.3043995244 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3KCI 	Calculation done: 84.4233055886 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3BPT 	Calculation done: 84.5422116528 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3BPT
non-standard AA:  H_MSE occurred at resseq positions:  [64, 123, 144, 167, 224, 265, 302, 315, 328, 337]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3AHQ 	Calculation done: 84.661117717 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QKD 	Calculation done: 84.7800237812 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2X4F 	Calculation done: 84.8989298454 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2OVJ 	Calculation done: 85.0178359096 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QTZ 	Calculation done: 85.1367419738 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2QTZ
non-standard AA:  H_CSO occurred at resseq positions:  [340, 421]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3L6A 	Calculation done: 85.255648038 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3ZR0 	Calculation done: 85.3745541023 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1TAZ 	Calculation done: 85.4934601665 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1TAZ
non-standard AA:  H_CME occurred at resseq positions:  [237]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3MAO 	Calculation done: 85.6123662307 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4ACR 	Calculation done: 85.7312722949 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1K1B 	Calculation done: 85.8501783591 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3MTS 	Calculation done: 85.9690844233 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	4DEQ 	Calculation done: 86.0879904875 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1NFN 	Calculation done: 86.2068965517 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2O2T 	Calculation done: 86.3258026159 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1OW1 	Calculation done: 86.4447086801 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3IQ2 	Calculation done: 86.5636147444 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3CKK 	Calculation done: 86.6825208086 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RJD 	Calculation done: 86.8014268728 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RJO 	Calculation done: 86.920332937 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2C9A 	Calculation done: 87.0392390012 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2C9A
non-standard AA:  H_MSE occurred at resseq positions:  [63, 69, 261]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2C9A
nchck =  256 nres =  257
	3I3C 	Calculation done: 87.1581450654 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1MLW 	Calculation done: 87.2770511296 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3R6B 	Calculation done: 87.3959571938 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1F5N 	Calculation done: 87.514863258 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NZL 	Calculation done: 87.6337693222 %
Using Ca-Ca distance criterion for DistMatrix Calculation
non-standard AA happens at position  10 but out of comparison region. resseq position saved for nAccess analysis


=============Warning: non-standard Amino Acid occuring
pdb ID:  3NZL
non-standard AA:  H_MSE occurred at resseq positions:  [11, 33, 48]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3NZL
nchck =  66 nres =  65
	3QOW 	Calculation done: 87.7526753864 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1DBH 	Calculation done: 87.8715814507 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1DBH
non-standard AA:  H_MSE occurred at resseq positions:  [209, 269, 387, 422, 446, 468, 496, 538]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1DBH
nchck =  332 nres =  338
	3R8Q 	Calculation done: 87.9904875149 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2NT0 	Calculation done: 88.1093935791 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1GS9 	Calculation done: 88.2282996433 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LYR 	Calculation done: 88.3472057075 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3LYR
non-standard AA:  H_MSE occurred at resseq positions:  [24, 31, 134, 150, 160, 208, 232]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1MG4 	Calculation done: 88.4661117717 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EH1 	Calculation done: 88.5850178359 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QF2 	Calculation done: 88.7039239001 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QYQ 	Calculation done: 88.8228299643 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3SLA 	Calculation done: 88.9417360285 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1G1T 	Calculation done: 89.0606420927 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2F37 	Calculation done: 89.179548157 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2F37
non-standard AA:  H_MSE occurred at resseq positions:  [121, 254, 269]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2F37
nchck =  244 nres =  246
	2RGZ 	Calculation done: 89.2984542212 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2RGZ
nchck =  0 nres =  214
	2WFI 	Calculation done: 89.4173602854 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2WFI
non-standard AA:  H_OCS occurred at resseq positions:  [63]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1SEN 	Calculation done: 89.5362663496 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QOL 	Calculation done: 89.6551724138 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3P6D 	Calculation done: 89.774078478 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===============ResidueDepth Checking Issue for PDB ID: 3P6D
nchck =  131 nres =  132
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3P6D
nchck =  131 nres =  132
	3QFT 	Calculation done: 89.8929845422 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3G07 	Calculation done: 90.0118906064 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3G07
non-standard AA:  H_MSE occurred at resseq positions:  [470, 599]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3G07
nchck =  191 nres =  193
	3L42 	Calculation done: 90.1307966706 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3CPF 	Calculation done: 90.2497027348 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3ERB 	Calculation done: 90.368608799 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3IDV 	Calculation done: 90.4875148633 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Q9V 	Calculation done: 90.6064209275 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QY7 	Calculation done: 90.7253269917 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3U9J 	Calculation done: 90.8442330559 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3U9J
non-standard AA:  H_MSE occurred at resseq positions:  [18, 56, 88, 127, 137, 139]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3RSN 	Calculation done: 90.9631391201 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3RSN
non-standard AA:  H_MSE occurred at resseq positions:  [46, 74, 96, 114, 123, 133]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	1BNL 	Calculation done: 91.0820451843 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2P39 	Calculation done: 91.2009512485 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2WFT 	Calculation done: 91.3198573127 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UV2 	Calculation done: 91.4387633769 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2FLS 	Calculation done: 91.5576694411 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ELK 	Calculation done: 91.6765755054 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UV4 	Calculation done: 91.7954815696 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UV5 	Calculation done: 91.9143876338 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3TBD 	Calculation done: 92.033293698 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Q0Z 	Calculation done: 92.1521997622 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2Q0Z
non-standard AA:  H_MSE occurred at resseq positions:  [95, 136, 141, 146, 179, 181, 302, 307]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3SOE 	Calculation done: 92.2711058264 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1T7V 	Calculation done: 92.3900118906 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1KI0 	Calculation done: 92.5089179548 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ELV 	Calculation done: 92.627824019 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2QFD 	Calculation done: 92.7467300832 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3OZ1 	Calculation done: 92.8656361474 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3I33 	Calculation done: 92.9845422117 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UD1 	Calculation done: 93.1034482759 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3DKP 	Calculation done: 93.2223543401 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1NB9 	Calculation done: 93.3412604043 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3OAI 	Calculation done: 93.4601664685 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2O71 	Calculation done: 93.5790725327 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3G4G 	Calculation done: 93.6979785969 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3G4E 	Calculation done: 93.8168846611 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Y5C 	Calculation done: 93.9357907253 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3DLM 	Calculation done: 94.0546967895 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FDW 	Calculation done: 94.1736028537 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2DW4 	Calculation done: 94.292508918 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2E56 	Calculation done: 94.4114149822 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2YYO 	Calculation done: 94.5303210464 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2YYO
non-standard AA:  H_MSE occurred at resseq positions:  [137, 139, 150]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3MPX 	Calculation done: 94.6492271106 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3MPX
non-standard AA:  H_MSE occurred at resseq positions:  [910, 923, 929, 1085, 1121, 1136, 1169, 1186]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3MPX
nchck =  295 nres =  303
	1OZ2 	Calculation done: 94.7681331748 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3FDR 	Calculation done: 94.887039239 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1BR9 	Calculation done: 95.0059453032 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3MYI 	Calculation done: 95.1248513674 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3IHO 	Calculation done: 95.2437574316 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1IU1 	Calculation done: 95.3626634958 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3F9M 	Calculation done: 95.48156956 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3HWN 	Calculation done: 95.6004756243 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QQ7 	Calculation done: 95.7193816885 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2Y23 	Calculation done: 95.8382877527 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2IU1 	Calculation done: 95.9571938169 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3HNY 	Calculation done: 96.0760998811 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GQQ 	Calculation done: 96.1950059453 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3GQQ
non-standard AA:  H_MSE occurred at resseq positions:  [96, 161, 207, 228]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3GQQ
nchck =  163 nres =  165
	2CCQ 	Calculation done: 96.3139120095 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2R8U 	Calculation done: 96.4328180737 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3EPZ 	Calculation done: 96.5517241379 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3EPZ
non-standard AA:  H_MSE occurred at resseq positions:  [380, 489, 502, 581]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3EPZ
nchck =  221 nres =  225
	3AL2 	Calculation done: 96.6706302021 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3AL2
non-standard AA:  H_MSE occurred at resseq positions:  [1375, 1474]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3AL2
nchck =  218 nres =  220
	2OXC 	Calculation done: 96.7895362663 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2BW0 	Calculation done: 96.9084423306 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3JUD 	Calculation done: 97.0273483948 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3JUE 	Calculation done: 97.146254459 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3DCY 	Calculation done: 97.2651605232 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3DCY
non-standard AA:  H_MSE occurred at resseq positions:  [60, 66, 79, 106, 130, 202, 227, 235, 257]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3UOM 	Calculation done: 97.3840665874 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3JUI 	Calculation done: 97.5029726516 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3JUI
non-standard AA:  H_MSE occurred at resseq positions:  [547, 593, 608, 663, 668]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 3JUI
nchck =  162 nres =  167
	1UWY 	Calculation done: 97.6218787158 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2AEW 	Calculation done: 97.74078478 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	2GFO 	Calculation done: 97.8596908442 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  2GFO
non-standard AA:  H_MSE occurred at resseq positions:  [788, 834, 877, 950]
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 2GFO
nchck =  335 nres =  339
	3B6H 	Calculation done: 97.9785969084 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3HAK 	Calculation done: 98.0975029727 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZBU 	Calculation done: 98.2164090369 %
Using Ca-Ca distance criterion for DistMatrix Calculation
===========Warning: MSMS or pdb_to_xyzr doesnot work
naccess: using defualt vdw.radii
naccess: using default STD FILE

===============nAccess Checking Issue for PDB ID: 1ZBU
nchck =  217 nres =  225
	2QPW 	Calculation done: 98.3353151011 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1NKO 	Calculation done: 98.4542211653 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1OZN 	Calculation done: 98.5731272295 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3NO8 	Calculation done: 98.6920332937 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1ZIW 	Calculation done: 98.8109393579 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1J1L 	Calculation done: 98.9298454221 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  1J1L
non-standard AA:  H_MSE occurred at resseq positions:  [73, 85, 93, 104, 126, 258]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	3PG7 	Calculation done: 99.0487514863 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	1FCY 	Calculation done: 99.1676575505 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3QNT 	Calculation done: 99.2865636147 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3HX3 	Calculation done: 99.405469679 %
Using Ca-Ca distance criterion for DistMatrix Calculation

=============Warning: non-standard Amino Acid occuring
pdb ID:  3HX3
non-standard AA:  H_MSE occurred at resseq positions:  [69, 159, 209, 223, 226]
naccess: using defualt vdw.radii
naccess: using default STD FILE


	2VPI 	Calculation done: 99.5243757432 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3LLK 	Calculation done: 99.6432818074 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


	3GHM 	Calculation done: 99.7621878716 %
Using Ca-Ca distance criterion for DistMatrix Calculation

naccess: using defualt vdw.radii
naccess: using default STD FILE


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