![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 8 months ago
Last modified 8 months ago
#17541 closed defect
ChimeraX bug report submission — at Initial Version
| Reported by: | Owned by: | ||
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | Window Toolkit | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: macOS-14.5-arm64-arm-64bit
ChimeraX Version: 1.9 (2024-12-11 19:11:19 UTC)
Description
Last time you used ChimeraX it crashed.
This is a known crash that we are unable to fix. Here is information that may help you avoid this crash. The Qt window toolkit crashed due to a display configuration change, typically when waking from sleep or when an external display is disconnected or connected. This has only been seen on Mac computers. We hope a newer version of Qt will fix it. We update ChimeraX daily builds whenever a new Qt is released. You can check here https://www.cgl.ucsf.edu/chimerax/docs/troubleshoot.html#macdisplay to see if it has been fixed in a newer ChimeraX.
Fatal Python error: Segmentation fault
Current thread 0x0000000205558c00 (most recent call first):
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/ui/gui.py", line 330 in event_loop
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1054 in init
File "/Applications/ChimeraX-1.9.app/Contents/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/chimerax/core/__main__.py", line 1217 in
File "", line 88 in _run_code
File "", line 198 in _run_module_as_main
Extension modules: chimerax.arrays._arrays, numpy.core._multiarray_umath, numpy.core._multiarray_tests, numpy.linalg._umath_linalg, numpy.fft._pocketfft_internal, numpy.random._common, numpy.random.bit_generator, numpy.random._bounded_integers, numpy.random._mt19937, numpy.random.mtrand, numpy.random._philox, numpy.random._pcg64, numpy.random._sfc64, numpy.random._generator, chimerax.geometry._geometry, PyQt6.QtCore, PyQt6.QtGui, PyQt6.QtWidgets, PyQt6.QtNetwork, PyQt6.QtPrintSupport, PyQt6.QtWebChannel, PyQt6.QtWebEngineCore, PyQt6.QtWebEngineWidgets, chimerax.atomic_lib._load_libs, tinyarray, chimerax.atomic.cymol, chimerax.atomic.cytmpl, chimerax.pdb_lib._load_libs, chimerax.surface._surface, chimerax.map._map, charset_normalizer.md, requests.packages.charset_normalizer.md, requests.packages.chardet.md, PIL._imaging, kiwisolver._cext, OpenGL_accelerate.errorchecker, OpenGL_accelerate.wrapper, OpenGL_accelerate.formathandler, OpenGL_accelerate.arraydatatype, OpenGL_accelerate.latebind, OpenGL_accelerate.vbo, chimerax.core._mac_util, OpenGL_accelerate.numpy_formathandler, OpenGL_accelerate.nones_formathandler, chimerax.mmcif._mmcif, chimerax.mmcif.mmcif, chimerax.atomic._ribbons, chimerax.graphics._graphics, chimerax.pdb._pdbio, PIL._imagingmath, chimerax.alignment_algs._sw, chimerax.dssp._dssp, chimerax.alignment_algs._nw, PyQt6.QtOpenGL, PyQt6.QtOpenGLWidgets, chimerax.atom_search.ast, markupsafe._speedups, cython.cimports.libc.math, scipy._lib._ccallback_c, scipy.sparse._sparsetools, _csparsetools, scipy.sparse._csparsetools, scipy.linalg._fblas, scipy.linalg._flapack, scipy.linalg.cython_lapack, scipy.linalg._cythonized_array_utils, scipy.linalg._solve_toeplitz, scipy.linalg._decomp_lu_cython, scipy.linalg._matfuncs_sqrtm_triu, scipy.linalg.cython_blas, scipy.linalg._matfuncs_expm, scipy.linalg._decomp_update, scipy.sparse.linalg._dsolve._superlu, scipy.sparse.linalg._eigen.arpack._arpack, scipy.sparse.linalg._propack._spropack, scipy.sparse.linalg._propack._dpropack, scipy.sparse.linalg._propack._cpropack, scipy.sparse.linalg._propack._zpropack, scipy.sparse.csgraph._tools, scipy.sparse.csgraph._shortest_path, scipy.sparse.csgraph._traversal, scipy.sparse.csgraph._min_spanning_tree, scipy.sparse.csgraph._flow, scipy.sparse.csgraph._matching, scipy.sparse.csgraph._reordering, scipy.spatial._ckdtree, scipy._lib.messagestream, scipy.spatial._qhull, scipy.spatial._voronoi, scipy.spatial._distance_wrap, scipy.spatial._hausdorff, scipy.special._ufuncs_cxx, scipy.special._ufuncs, scipy.special._specfun, scipy.special._comb, scipy.special._ellip_harm_2, scipy.spatial.transform._rotation, chimerax.chem_group._chem_group, chimerax.coulombic._esp (total: 99)
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"procRole" : "Background",
"version" : 2,
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"captureTime" : "2025-05-02 18:49:50.8944 +0200",
"codeSigningMonitor" : 1,
"incident" : "746DDB69-2454-4E94-B3CC-FC8E36AFF404",
"pid" : 23274,
"translated" : false,
"cpuType" : "ARM-64",
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"bug_type" : "309",
"procLaunch" : "2025-04-30 11:31:59.3327 +0200",
"procStartAbsTime" : 4357751321650,
"procExitAbsTime" : 9135395117375,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.9.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.9.0","CFBundleVersion":"1.9.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
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"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "3BE5CE21-60DE-DC91-9B50-5F112512B399",
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"instructionByteStream" : {"beforePC":"fyMD1f17v6n9AwCRW+D\/l78DAJH9e8Go\/w9f1sADX9YQKYDSARAA1A==","atPC":"AwEAVH8jA9X9e7+p\/QMAkVDg\/5e\/AwCR\/XvBqP8PX9bAA1\/WcAqA0g=="},
"sip" : "enabled",
"vmRegionInfo" : "0x7eaf95fc6528 is not in any region. Bytes after previous region: 33549969024297 \n REGION TYPE START - END [ VSIZE] PRT\/MAX SHRMOD REGION DETAIL\n MALLOC_NANO 602c00000000-602c20000000 [512.0M] rw-\/rwx SM=PRV \n---> \n UNUSED SPACE AT END",
"exception" : {"codes":"0x0000000000000001, 0x00007eaf95fc6528","rawCodes":[1,139292600722728],"type":"EXC_BAD_ACCESS","signal":"SIGSEGV","subtype":"KERN_INVALID_ADDRESS at 0x00007eaf95fc6528"},
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"faultingThread" : 0,
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===== Log before crash start =====
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open 7oe3
Summary of feedback from opening 7oe3 fetched from pdb
---
note | Fetching compressed mmCIF 7oe3 from http://files.rcsb.org/download/7oe3.cif
7oe3 title:
Apo-structure of Lassa virus L protein (well-resolved endonuclease) [APO-ENDO]
[more info...]
Chain information for 7oe3 #1
---
Chain | Description | UniProt
L | RNA-directed RNA polymerase L | A0A3S8NV63_9VIRU 1-2217
Non-standard residues in 7oe3 #1
---
MG — magnesium ion
ZN — zinc ion
> open 7oeb 7oea 7och
Summary of feedback from opening 7oeb fetched from pdb
---
note | Fetching compressed mmCIF 7oeb from http://files.rcsb.org/download/7oeb.cif
Summary of feedback from opening 7oea fetched from pdb
---
note | Fetching compressed mmCIF 7oea from http://files.rcsb.org/download/7oea.cif
Summary of feedback from opening 7och fetched from pdb
---
note | Fetching compressed mmCIF 7och from http://files.rcsb.org/download/7och.cif
7oeb title:
Lassa virus L protein bound to 3' promoter RNA (well-resolved endonuclease)
[3END-ENDO] [more info...]
Chain information for 7oeb #2
---
Chain | Description | UniProt
E | 3' vRNA |
L | RNA-directed RNA polymerase L | A0A3S8NV63_9VIRU 1-2217
Non-standard residues in 7oeb #2
---
MG — magnesium ion
ZN — zinc ion
10 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
7oea title:
Lassa virus L protein bound to 3' promoter RNA (well-resolved polymerase core)
[3END-CORE] [more info...]
Chain information for 7oea #3
---
Chain | Description | UniProt
E | 3' vRNA |
L | RNA-directed RNA polymerase L | A0A3S8NV63_9VIRU 1-2217
Non-standard residues in 7oea #3
---
MG — magnesium ion
ZN — zinc ion
10 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
7och title:
Apo-structure of Lassa virus L protein (well-resolved polymerase core) [APO-
CORE] [more info...]
Chain information for 7och #4
---
Chain | Description | UniProt
L | RNA-directed RNA polymerase L | A0A3S8NV63_9VIRU 1-2217
Non-standard residues in 7och #4
---
MG — magnesium ion
ZN — zinc ion
> mmaker #2-4 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oe3, chain L (#1) with 7oeb, chain L (#2), sequence alignment
score = 9779.8
RMSD between 839 pruned atom pairs is 1.425 angstroms; (across all 1420 pairs:
2.138)
Matchmaker 7oe3, chain L (#1) with 7oea, chain L (#3), sequence alignment
score = 9820.6
RMSD between 833 pruned atom pairs is 1.420 angstroms; (across all 1418 pairs:
2.078)
Matchmaker 7oe3, chain L (#1) with 7och, chain L (#4), sequence alignment
score = 9472.6
RMSD between 1158 pruned atom pairs is 0.531 angstroms; (across all 1175
pairs: 0.739)
> hide #!4 models
> hide #!3 models
> hide #!2 models
> show #!2 models
> hide #!2 models
> show #!3 models
> hide #!3 models
> show #!4 models
> hide #!4 models
> mmaker #3 to #2
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oeb, chain L (#2) with 7oea, chain L (#3), sequence alignment
score = 10117.6
RMSD between 1432 pruned atom pairs is 0.386 angstroms; (across all 1432
pairs: 0.386)
> show #!2 models
> show #!3 models
> hide #!1 models
> close
> open 7oea
7oea title:
Lassa virus L protein bound to 3' promoter RNA (well-resolved polymerase core)
[3END-CORE] [more info...]
Chain information for 7oea #1
---
Chain | Description | UniProt
E | 3' vRNA |
L | RNA-directed RNA polymerase L | A0A3S8NV63_9VIRU 1-2217
Non-standard residues in 7oea #1
---
MG — magnesium ion
ZN — zinc ion
10 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
> sequence chain #1/L
Alignment identifier is 1/L
> select /L:1824
5 atoms, 4 bonds, 1 residue, 1 model selected
> select /L:1813-1824
98 atoms, 99 bonds, 12 residues, 1 model selected
> select clear
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7ojn.pdb
7ojn.pdb title:
Lassa virus L protein In an elongation conformation [elongation] [more
info...]
Chain information for 7ojn.pdb #2
---
Chain | Description
D | No description available
E R | No description available
L | RNA-directed RNA polymerase L
M | No description available
Non-standard residues in 7ojn.pdb #2
---
2KH —
5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine
MN — manganese (II) ion
ZN — zinc ion
> hide #!1 models
> select #2/D:1-12
242 atoms, 270 bonds, 12 residues, 1 model selected
> ~select
Nothing selected
> show #!2 atoms
> hide #!2 atoms
> show #!2 cartoons
> show #!1 models
> mmaker #2 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn.pdb, chain L (#2), sequence alignment
score = 9873.4
RMSD between 949 pruned atom pairs is 1.137 angstroms; (across all 1426 pairs:
20.036)
> hide #!2 models
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7ojl.pdb
7ojl.pdb title:
Lassa virus L protein In A pre-initiation conformation [preinitiation] [more
info...]
Chain information for 7ojl.pdb #3
---
Chain | Description
D | 5' RNA
E | 3' RNA
L | RNA-directed RNA polymerase L
Non-standard residues in 7ojl.pdb #3
---
MN — manganese (II) ion
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7ojk.pdb
7ojk.pdb title:
Lassa virus L protein bound to the distal promoter duplex [distal- promoter]
[more info...]
Chain information for 7ojk.pdb #4
---
Chain | Description
D | 5' RNA
E | 3' RNA
L | RNA-directed RNA polymerase L
Non-standard residues in 7ojk.pdb #4
---
ZN — zinc ion
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7ojj.pdb
7ojj.pdb title:
Lassa virus L protein with endonuclease and C-terminal domains In close
proximity [mid-link] [more info...]
Chain information for 7ojj.pdb #5
---
Chain | Description
L | RNA-directed RNA polymerase L
Non-standard residues in 7ojj.pdb #5
---
MG — magnesium ion
ZN — zinc ion
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7oeb.pdb
7oeb.pdb title:
Lassa virus L protein bound to 3' promoter RNA (well-resolved endonuclease)
[3END-ENDO] [more info...]
Chain information for 7oeb.pdb #6
---
Chain | Description
E | 3' VRNA
L | RNA-directed RNA polymerase L
Non-standard residues in 7oeb.pdb #6
---
MG — magnesium ion
ZN — zinc ion
10 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7oe7.pdb
7oe7.pdb title:
Apo-structure of lassa virus L protein (well-resolved α ribbon) [apo-ribbon]
[more info...]
Chain information for 7oe7.pdb #7
---
Chain | Description
L | RNA-directed RNA polymerase L
Non-standard residues in 7oe7.pdb #7
---
MG — magnesium ion
ZN — zinc ion
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7oe3.pdb
7oe3.pdb title:
Apo-structure of lassa virus L protein (well-resolved endonuclease) [apo-ENDO]
[more info...]
Chain information for 7oe3.pdb #8
---
Chain | Description
L | RNA-directed RNA polymerase L
Non-standard residues in 7oe3.pdb #8
---
MG — magnesium ion
ZN — zinc ion
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7och.pdb
7och.pdb title:
Apo-structure of lassa virus L protein (well-resolved polymerase core) [apo-
core] [more info...]
Chain information for 7och.pdb #9
---
Chain | Description
L | RNA-directed RNA polymerase L
Non-standard residues in 7och.pdb #9
---
MG — magnesium ion
ZN — zinc ion
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7ela.pdb
7ela.pdb title:
Structure of lassa virus polymerase In complex with 3'-VRNA and Z mutant
(F36A) [more info...]
Chain information for 7ela.pdb #10
---
Chain | Description
A | RNA-directed RNA polymerase L
B | ring finger protein Z
C | 3-'VRNA promoter
Non-standard residues in 7ela.pdb #10
---
MN — manganese (II) ion
ZN — zinc ion
14 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7ckl.pdb
7ckl.pdb title:
Structure of lassa virus polymerase bound to Z matrix protein [more info...]
Chain information for 7ckl.pdb #11
---
Chain | Description
A | RNA-directed RNA polymerase L
B | ring finger protein Z
Non-standard residues in 7ckl.pdb #11
---
MN — manganese (II) ion
ZN — zinc ion
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/6klc.pdb
6klc.pdb title:
Structure of apo lassa virus polymerase [more info...]
Chain information for 6klc.pdb #12
---
Chain | Description
A | RNA-directed RNA polymerase L
Non-standard residues in 6klc.pdb #12
---
MN — manganese (II) ion
> hide #!12 models
> hide #!11 models
> hide #!10 models
> hide #!9 models
> hide #!8 models
> hide #!7 models
> hide #!6 models
> hide #!5 models
> hide #!4 models
> mmaker #3 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojl.pdb, chain L (#3), sequence alignment
score = 9518.8
RMSD between 1040 pruned atom pairs is 0.699 angstroms; (across all 1210
pairs: 3.005)
> hide #!3 models
> show #!2 models
Cell requested for row 0 is out of bounds for table with 0 rows! Resizing
table model.
> select #2/R:14-24
231 atoms, 256 bonds, 11 residues, 1 model selected
> select #2/E:10-16
149 atoms, 165 bonds, 7 residues, 1 model selected
> show sel atoms
> style sel stick
Changed 149 atom styles
> nucleotides sel tube/slab shape box
> hide #2.2 models
> show #2.2 models
> hide #!2 models
> show #!3 models
> hide #!3 models
> show #!4 models
> mmaker #4 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojk.pdb, chain L (#4), sequence alignment
score = 9604
RMSD between 729 pruned atom pairs is 1.363 angstroms; (across all 1382 pairs:
19.322)
> hide #!4.2 models
> close #4
> show #!5 models
> mmaker #5 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojj.pdb, chain L (#5), sequence alignment
score = 9703.6
RMSD between 767 pruned atom pairs is 1.390 angstroms; (across all 1372 pairs:
19.261)
> hide #!5.2 models
> hide #!5 models
> open /Users/gabriele/Desktop/L_protein/L_protein_pdb/7ojk.pdb
7ojk.pdb title:
Lassa virus L protein bound to the distal promoter duplex [distal- promoter]
[more info...]
Chain information for 7ojk.pdb #4
---
Chain | Description
D | 5' RNA
E | 3' RNA
L | RNA-directed RNA polymerase L
Non-standard residues in 7ojk.pdb #4
---
ZN — zinc ion
> hide #!4 models
> show #!6 models
> hide #!6.2 models
> hide #!6 models
> show #!7 models
> mmaker #7 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7oe7.pdb, chain L (#7), sequence alignment
score = 9417.4
RMSD between 758 pruned atom pairs is 1.402 angstroms; (across all 1223 pairs:
3.071)
> hide #!7.2 models
> hide #!7 models
> show #!8 models
> mmaker #8 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7oe3.pdb, chain L (#8), sequence alignment
score = 9820.6
RMSD between 833 pruned atom pairs is 1.420 angstroms; (across all 1418 pairs:
2.078)
> hide #!8.2 models
> show #!8.2 models
> hide #!8 models
> show #!9 models
> show #!2 models
> hide #!2 models
> hide #!9 models
> show #!10 models
> mmaker #9 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7och.pdb, chain L (#9), sequence alignment
score = 9460.6
RMSD between 806 pruned atom pairs is 1.406 angstroms; (across all 1165 pairs:
1.871)
> mmaker #10 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ela.pdb, chain A (#10), sequence alignment
score = 8964.8
RMSD between 1232 pruned atom pairs is 0.843 angstroms; (across all 1361
pairs: 1.292)
> hide #!1 models
> show #!1 models
> hide #!10 models
> show #!11 models
> mmaker #11 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ckl.pdb, chain A (#11), sequence alignment
score = 8904.2
RMSD between 1170 pruned atom pairs is 0.925 angstroms; (across all 1317
pairs: 1.411)
> hide #!11.2 models
> hide #!11 models
> show #!11 models
> show #!11.2 models
> show #!12 models
> hide #!11 models
> mmaker #12 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 6klc.pdb, chain A (#12), sequence alignment
score = 8751.6
RMSD between 997 pruned atom pairs is 1.084 angstroms; (across all 1319 pairs:
2.921)
> hide #!12.2 models
> show #!12.2 models
> hide #!12.2 models
> show #!12.2 models
> hide #!12 models
> show #!11 models
> select #11/A:1-1300
7853 atoms, 7978 bonds, 13 pseudobonds, 1004 residues, 2 models selected
> select #11/A:1-1200
7133 atoms, 7241 bonds, 11 pseudobonds, 914 residues, 2 models selected
> select #11/A:1-1220
7264 atoms, 7376 bonds, 11 pseudobonds, 930 residues, 2 models selected
> select #11/A:90-1220
6608 atoms, 6713 bonds, 10 pseudobonds, 845 residues, 2 models selected
> ui tool show "Show Sequence Viewer"
> sequence chain #11/A
Alignment identifier is 11/A
> select clear
> select #11/A:1
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #11/A:1-195
1493 atoms, 1514 bonds, 1 pseudobond, 191 residues, 2 models selected
> select
> #11/A:1-15,21-31,38-58,68-76,108-132,153-168,171-177,179-191,212-221,232-252,262-272,283-292,295-301,320-332,340-363,377-379,384-401,416-436,440-445,454-461,493-510,578-582,589-607,612-630,632-650,657-663,669-686,693-711,717-737,748-762,782-795,847-862,873-890,902-910,916-929,1139-1159,1167-1184,1195-1211,1225-1238,1244-1261,1269-1280,1299-1323,1340-1368,1398-1409,1414-1433,1435-1453,1475-1488,1490-1508,1512-1520,1523-1536,1581-1586,1614-1626,1640-1650,1678-1681,1686-1701,1703-1707,1744-1759,1782-1791
6685 atoms, 6743 bonds, 842 residues, 1 model selected
> select #11/A:1
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #11/A:1-306
2371 atoms, 2406 bonds, 2 pseudobonds, 297 residues, 2 models selected
> select #11/A:1
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #11/A:1-223
1677 atoms, 1700 bonds, 2 pseudobonds, 214 residues, 2 models selected
> select #11/A:721-722
17 atoms, 16 bonds, 2 residues, 1 model selected
> select #11/A:721-800
621 atoms, 634 bonds, 80 residues, 1 model selected
> select
> #11/A:1-15,21-31,38-58,68-76,108-132,153-168,171-177,179-191,212-221,232-252,262-272,283-292,295-301,320-332,340-363,377-379,384-401,416-436,440-445,454-461,493-510,578-582,589-607,612-630,632-650,657-663,669-686,693-711,717-737,748-762,782-795,847-862,873-890,902-910,916-929,1139-1159,1167-1184,1195-1211,1225-1238,1244-1261,1269-1280,1299-1323,1340-1368,1398-1409,1414-1433,1435-1453,1475-1488,1490-1508,1512-1520,1523-1536,1581-1586,1614-1626,1640-1650,1678-1681,1686-1701,1703-1707,1744-1759,1782-1791
6685 atoms, 6743 bonds, 842 residues, 1 model selected
> select #11/A:846
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #11/A:846-931
322 atoms, 318 bonds, 3 pseudobonds, 65 residues, 2 models selected
> select #11/A:721
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #11/A:721-931
943 atoms, 952 bonds, 4 pseudobonds, 145 residues, 2 models selected
> select #11/A:721-931
943 atoms, 952 bonds, 4 pseudobonds, 145 residues, 2 models selected
> select #11/A:766-767
8 atoms, 7 bonds, 2 residues, 1 model selected
> select #11/A:766-931
578 atoms, 579 bonds, 4 pseudobonds, 100 residues, 2 models selected
> select #11/A:1091
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #11/A:1091-1123
247 atoms, 251 bonds, 33 residues, 1 model selected
> select #11/A:1126-1127
18 atoms, 17 bonds, 2 residues, 1 model selected
> select #11/A:1126-1213
705 atoms, 718 bonds, 88 residues, 1 model selected
> select #11/A:721
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #11/A:721-765
365 atoms, 372 bonds, 45 residues, 1 model selected
> select #11/A:541
11 atoms, 11 bonds, 1 residue, 1 model selected
> select #11/A:541-765
1854 atoms, 1890 bonds, 225 residues, 1 model selected
> select #11/A:718-719
19 atoms, 18 bonds, 2 residues, 1 model selected
> select #11/A:718-931
969 atoms, 978 bonds, 4 pseudobonds, 148 residues, 2 models selected
> select #11/A:1240-1241
15 atoms, 14 bonds, 2 residues, 1 model selected
> select #11/A:1241-1305
473 atoms, 482 bonds, 1 pseudobond, 61 residues, 2 models selected
> select #11/A:224-717
3623 atoms, 3681 bonds, 4 pseudobonds, 442 residues, 2 models selected
> delete sel
> select #11/A:932-1239
1143 atoms, 1167 bonds, 1 pseudobond, 143 residues, 2 models selected
> delete sel
> select #11/A:1287-2217
3389 atoms, 3463 bonds, 4 pseudobonds, 425 residues, 2 models selected
> delete sel
> hide #!1 models
Drag select of 34 atoms, 49 residues, 8 pseudobonds, 23 bonds
> delete sel
> show #!1 models
> mmaker #11 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ckl.pdb, chain A (#11), sequence alignment
score = 7692.2
RMSD between 276 pruned atom pairs is 1.001 angstroms; (across all 336 pairs:
1.707)
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ckl_alphabundle.pdb
> models #11
> close #11
> open 7ojn
7ojn title:
Lassa virus L protein in an elongation conformation [ELONGATION] [more
info...]
Chain information for 7ojn #11
---
Chain | Description | UniProt
D | 5' RNA |
E R | 3' RNA |
L | RNA-directed RNA polymerase L | A0A3S8NV63_9VIRU 1-2217
M | product RNA |
Non-standard residues in 7ojn #11
---
2KH —
5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine
MN — manganese (II) ion
ZN — zinc ion
> hide #!1 models
> show #!11 cartoons
> hide #!11 atoms
> mm#11 to #1
Unknown command: mm#11 to #1
> mmaker #11 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn, chain L (#11), sequence alignment
score = 9873.4
RMSD between 949 pruned atom pairs is 1.137 angstroms; (across all 1426 pairs:
20.036)
> show #!1 models
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ckl_alphabundle.pdb
7ckl_alphabundle.pdb title:
Structure of lassa virus polymerase bound to Z matrix protein [more info...]
Chain information for 7ckl_alphabundle.pdb #13
---
Chain | Description
A | RNA-directed RNA polymerase L
> hide #!13 models
> show #!13 models
> hide #!13.1 models
> show #!13.1 models
> hide #!13.1 models
> hide #!13 models
> show #!13.1 models
> hide #!13 models
Cell requested for row 12 is out of bounds for table with 14 rows! Resizing
table model.
> hide #11.3 models
> select #11/A:1-430
Nothing selected
> select #11/L:1-430
3406 atoms, 3460 bonds, 2 pseudobonds, 418 residues, 2 models selected
> delete sel
> select #11/L:620-2217
11240 atoms, 11480 bonds, 5 pseudobonds, 1403 residues, 2 models selected
> delete sel
> mmaker #11 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn, chain L (#11), sequence alignment
score = 8212
RMSD between 170 pruned atom pairs is 0.741 angstroms; (across all 174 pairs:
0.813)
> hide #!1 models
> show #!11 atoms
Drag select of 340 atoms, 20 residues, 24 pseudobonds, 182 bonds
> delete sel
Drag select of 1 atoms
> delete sel
> style #!11 stick
Changed 1884 atom styles
> hide #!11 atoms
Drag select of 7 residues
> delete sel
> select add #11/D:12
5 atoms, 4 bonds, 1 residue, 1 model selected
> select add #11/D:11
28 atoms, 29 bonds, 2 residues, 1 model selected
> select add #11/D:10
51 atoms, 54 bonds, 3 residues, 1 model selected
> select add #11/D:9
74 atoms, 79 bonds, 4 residues, 1 model selected
Drag select of 8 residues
> delete sel
> show #!11 atoms
> hide #!11 atoms
> show #!1 models
> mmaker #11 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn, chain L (#11), sequence alignment
score = 8212
RMSD between 170 pruned atom pairs is 0.741 angstroms; (across all 174 pairs:
0.813)
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ojn_430-620.pdb
> models #11
> hide #!11 models
> show #!2 models
> show #!13 models
> hide #!13 models
> select #2/L:500-1000
3171 atoms, 3225 bonds, 2 pseudobonds, 393 residues, 2 models selected
> select #2/L:500-900
3026 atoms, 3078 bonds, 1 pseudobond, 377 residues, 2 models selected
> select #2/L:500-800
2434 atoms, 2480 bonds, 301 residues, 1 model selected
> hide #!1 models
> select #2/L:1-499
3950 atoms, 4014 bonds, 2 pseudobonds, 487 residues, 2 models selected
> delete sel
> select #2/L:801-2217
9758 atoms, 9968 bonds, 5 pseudobonds, 1222 residues, 2 models selected
> delete sel
Drag select of 20 residues, 2 shapes
> delete sel
Drag select of 16 atoms, 7 residues, 12 bonds, 15 shapes
> delete sel
> style #!2 stick
Changed 2711 atom styles
> show #!2 atoms
Drag select of 1 atoms
Drag select of 3 atoms
> delete sel
Drag select of 31 atoms, 4 pseudobonds, 30 bonds
> delete sel
> style #!2 sphere
Changed 2676 atom styles
> style #!2 stick
Changed 2676 atom styles
> hide #!2 atoms
> show #!1 models
> show #!13 models
> hide #!13 models
> mm#2 to #1
Unknown command: mm#2 to #1
> mmaker #2 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn.pdb, chain L (#2), sequence alignment
score = 8428.6
RMSD between 285 pruned atom pairs is 0.846 angstroms; (across all 289 pairs:
0.886)
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ojn_500-800_5hook.pdb
> models #2
> show #!13 models
> show #!11 models
> hide #!2 models
> hide #!13.1 models
> open 7ojn
7ojn title:
Lassa virus L protein in an elongation conformation [ELONGATION] [more
info...]
Chain information for 7ojn #14
---
Chain | Description | UniProt
D | 5' RNA |
E R | 3' RNA |
L | RNA-directed RNA polymerase L | A0A3S8NV63_9VIRU 1-2217
M | product RNA |
Non-standard residues in 7ojn #14
---
2KH —
5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine
MN — manganese (II) ion
ZN — zinc ion
Cell requested for row 0 is out of bounds for table with 14 rows! Resizing
table model.
> show #!1,11,13-14 cartoons
> hide #!1,11,13-14 atoms
> mmaker #14 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn, chain L (#14), sequence alignment
score = 9873.4
RMSD between 949 pruned atom pairs is 1.137 angstroms; (across all 1426 pairs:
20.036)
> close #14
> show #!3 models
> hide #!3 models
> show #!2 models
> hide #!2 models
> show #!3 models
> hide #!3 models
> show #!4 models
> mmaker #4 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojk.pdb, chain L (#4), sequence alignment
score = 9604
RMSD between 729 pruned atom pairs is 1.363 angstroms; (across all 1382 pairs:
19.322)
> hide #!4 models
> show #!5 models
> select #5/L:250- 380
Expected an objects specifier or a keyword
> select #5/L:250-360
873 atoms, 888 bonds, 1 pseudobond, 105 residues, 2 models selected
> select #5/L:250-3800
12324 atoms, 12565 bonds, 16 pseudobonds, 1538 residues, 3 models selected
> select #5/L:250-380
1030 atoms, 1049 bonds, 1 pseudobond, 125 residues, 2 models selected
> select #5/L:1-249
2006 atoms, 2036 bonds, 249 residues, 1 model selected
> delete sel
> select #5/L:381-2217
11292 atoms, 11515 bonds, 10 pseudobonds, 1411 residues, 2 models selected
> de33el sel
Unknown command: de33el sel
> delete sel
> hide #!13 models
> hide #!11 models
> mmaker #5 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojj.pdb, chain L (#5), sequence alignment
score = 8191
RMSD between 90 pruned atom pairs is 1.161 angstroms; (across all 115 pairs:
1.656)
> hide #!1 models
> show #!5 atoms
> select clear
Drag select of 93 atoms, 21 residues, 78 bonds
> delete sel
> hide #!5 atoms
> show #!5 atoms
> hide #!5 atoms
> show #!1 models
> mmaker #5 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojj.pdb, chain L (#5), sequence alignment
score = 8169.4
RMSD between 90 pruned atom pairs is 1.161 angstroms; (across all 94 pairs:
1.321)
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ojj_271-380.pdb
> models #5
> show #!13 models
> show #!12 models
> hide #!12 models
> show #!11 models
> show #!8 models
> hide #!8 models
> show #!6 models
> close #6
> show #!7 models
> hide #!7 models
> show #!8 models
> hide #!8 models
> show #!9 models
> hide #!9.2 models
> hide #!5 models
> select #9/L:260-380
939 atoms, 957 bonds, 1 pseudobond, 114 residues, 2 models selected
> select #9/L:1-259
497 atoms, 503 bonds, 61 residues, 1 model selected
> delete sel
> select #9/L:381-2217
8078 atoms, 8243 bonds, 9 pseudobonds, 1006 residues, 2 models selected
> delete sel
> mmaker #9 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7och.pdb, chain L (#9), sequence alignment
score = 8173
RMSD between 88 pruned atom pairs is 1.129 angstroms; (across all 104 pairs:
1.479)
> hide #!1 models
> hide #!11 models
> hide #!13 models
Drag select of 1 atoms
> delete sel
> show #!1 models
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7och_260-380.pdb
> models #9
> hide #!9 models
> show #!10 models
> hide #!10.2 models
> show #!8 models
> hide #!8 models
> show #!7 models
> hide #!1 models
> hide #!10 models
> show #!1 models
> show #!13 models
> show #!7.2 models
> hide #!7.2 models
> show #!7.2 models
> hide #!7.2 models
> show #!7.2 models
> select #1/:L1070-1080
Expected an objects specifier or a keyword
> select #1/:A1070-1080
Expected an objects specifier or a keyword
> select #1/L:1070-1080
Nothing selected
> select #7/L:781-1069
1127 atoms, 1140 bonds, 3 pseudobonds, 141 residues, 2 models selected
> close #7
> show #!2 models
> hide #!2 models
> show #!4 models
> hide #!4 models
> show #!11 models
> show #!9 models
> show #!2 models
> hide #!2 models
> show #!3 models
> hide #!3 models
> show #!4 models
> hide #!4 models
> show #!5 models
> hide #!5 models
> show #!8 models
> hide #!8 models
> show #!12 models
> show #!8 models
> show #!5 models
> hide #!5 models
> show #!5 models
> hide #!5 models
> show #!10 models
> hide #!10 models
> hide #!12 models
> hide #!9 models
> hide #!11 models
> hide #!13 models
> show #!10 models
> hide #!10 models
> show #!12 models
> hide #!12 models
> select ~sel & ##selected
Nothing selected
> select #8/L:1520-1790
1891 atoms, 1936 bonds, 3 pseudobonds, 239 residues, 2 models selected
> select #8/L:1-1519
9750 atoms, 9932 bonds, 5 pseudobonds, 1207 residues, 2 models selected
> delete sel
> select #8/L:1791-2217
261 atoms, 264 bonds, 1 pseudobond, 32 residues, 2 models selected
> delete sel
> hide #!1 models
Drag select of 1 atoms
> delete sel
> style #!8 sphere
Changed 1891 atom styles
> show #!8 atoms
> style #!8 stick
Changed 1891 atom styles
> hide #!8 atoms
> show #!1 models
> mm#8 to #1
Unknown command: mm#8 to #1
> mmaker #8 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7oe3.pdb, chain L (#8), sequence alignment
score = 8262.4
RMSD between 189 pruned atom pairs is 1.188 angstroms; (across all 207 pairs:
1.350)
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oe3_1520-1790.pdb
> models #8
> show #!13 models
> show #!12 models
> hide #!12 models
> show #!11 models
> show #!9 models
> show #!2 models
> show #!3 models
> hide #!3 models
> show #!4 models
> hide #!4 models
> show #!5 models
> hide #!5 models
> show #!10 models
> hide #!10 models
> hide #!1 models
> hide #!2 models
> show #!2 models
> show #!3 models
> hide #!3 models
> close #3
> show #!4 models
> hide #!4 models
> close #4
> show #!5 models
> hide #!5 models
> close #5
> show #!10 models
> hide #!10 models
> close #10
> show #!12 models
> hide #!12 models
> close #12
> show #!1 models
> mmaker #2 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn.pdb, chain L (#2), sequence alignment
score = 8428.6
RMSD between 285 pruned atom pairs is 0.846 angstroms; (across all 289 pairs:
0.886)
> mmaker #8 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7oe3.pdb, chain L (#8), sequence alignment
score = 8262.4
RMSD between 189 pruned atom pairs is 1.188 angstroms; (across all 207 pairs:
1.350)
> mmaker #9 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7och.pdb, chain L (#9), sequence alignment
score = 8173
RMSD between 88 pruned atom pairs is 1.129 angstroms; (across all 104 pairs:
1.479)
> mmaker #11 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn, chain L (#11), sequence alignment
score = 8212
RMSD between 170 pruned atom pairs is 0.741 angstroms; (across all 174 pairs:
0.813)
> mmaker #13 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ckl_alphabundle.pdb, chain A (#13),
sequence alignment score = 7692.2
RMSD between 276 pruned atom pairs is 1.001 angstroms; (across all 336 pairs:
1.707)
> hide #!13 models
> hide #!11 models
> hide #!9 models
> hide #!8 models
> hide #!2 models
> show #!2 models
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ojn_500-800_5hook.pdb
> models #2
> hide #!2 models
> show #!8 models
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oe3_1520-1790.pdb
> models #8
> hide #!8 models
> show #!9 models
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7och_260-380.pdb
> models #9
> hide #!9 models
> show #!11 models
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ojn_430-620.pdb
> models #11
> hide #!11 models
> show #!13 models
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ckl_alphabundle.pdb
> models #13
> hide #!13 models
> open 7ojn
7ojn title:
Lassa virus L protein in an elongation conformation [ELONGATION] [more
info...]
Chain information for 7ojn #3
---
Chain | Description | UniProt
D | 5' RNA |
E R | 3' RNA |
L | RNA-directed RNA polymerase L | A0A3S8NV63_9VIRU 1-2217
M | product RNA |
Non-standard residues in 7ojn #3
---
2KH —
5'-O-[(S)-hydroxy{[(S)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]uridine
MN — manganese (II) ion
ZN — zinc ion
> hide #!1,3 atoms
> show #!1,3 cartoons
> mmaker #3 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn, chain L (#3), sequence alignment
score = 9873.4
RMSD between 949 pruned atom pairs is 1.137 angstroms; (across all 1426 pairs:
20.036)
> select #3/L:1550-1840
2161 atoms, 2209 bonds, 2 pseudobonds, 271 residues, 2 models selected
> select #3/L:1-1549
11061 atoms, 11262 bonds, 5 pseudobonds, 1371 residues, 2 models selected
> delete sel
> select #3/L:1841-2217
2920 atoms, 2991 bonds, 368 residues, 1 model selected
> delete sel
> mmaker #3 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn, chain L (#3), sequence alignment
score = 8247.4
RMSD between 131 pruned atom pairs is 0.860 angstroms; (across all 210 pairs:
5.191)
> hide #!1 models
Drag select of 12 residues
> select up
3010 atoms, 3144 bonds, 317 residues, 1 model selected
> select down
242 atoms, 12 residues, 1 model selected
> delete sel
Drag select of 7 residues
> delete sel
Drag select of 6 residues
> delete sel
Drag select of 5 residues
> delete sel
Drag select of 3 residues
> delete sel
Drag select of 5 residues
> delete sel
> show #!3 atoms
Drag select of 31 atoms, 4 pseudobonds, 30 bonds
> delete sel
Drag select of 1 atoms
> delete sel
Drag select of 1 atoms
> delete sel
Drag select of 2 atoms
> delete sel
Drag select of 12 atoms, 15 bonds
> delete sel
> select #3/M:18@O2'
1 atom, 1 residue, 1 model selected
> select add #3/M:18@O4
2 atoms, 1 residue, 1 model selected
> delete sel
> style #!3 stick
Changed 2167 atom styles
> hide #!3 atoms
> show #!1 models
> mmaker #3 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn, chain L (#3), sequence alignment
score = 8247.4
RMSD between 131 pruned atom pairs is 0.860 angstroms; (across all 210 pairs:
5.191)
> select #3/L:1800-2217
290 atoms, 294 bonds, 1 pseudobond, 35 residues, 2 models selected
> delete sel
> mmaker #3 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with 7ojn, chain L (#3), sequence alignment
score = 8225.8
RMSD between 113 pruned atom pairs is 0.795 angstroms; (across all 186 pairs:
5.325)
> hide #!3 models
> show #!13 models
> ui tool show "Show Sequence Viewer"
> sequence chain #13/A
Alignment identifier is 13/A
> select
> #13/A:1-15,21-31,38-58,68-76,108-132,153-168,171-177,179-191,212-221,718-737,748-762,782-795,847-862,873-890,902-910,916-929,1244-1261,1269-1280
1928 atoms, 1939 bonds, 263 residues, 1 model selected
> select clear
> select #13/A:61-62,90-94,97-105,136-144,207-208,1240-1242
241 atoms, 239 bonds, 30 residues, 1 model selected
> select clear
> ui tool show "Show Sequence Viewer"
> hide #!13 models
> close #2-3,8-9,11
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7och_260-380.pdb
7och_260-380.pdb title:
Apo-structure of lassa virus L protein (well-resolved polymerase core) [apo-
core] [more info...]
Chain information for 7och_260-380.pdb #2
---
Chain | Description
L | RNA-directed RNA polymerase L
Non-standard residues in 7och_260-380.pdb #2
---
ZN — zinc ion
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oe3_1520-1790.pdb
7oe3_1520-1790.pdb title:
Apo-structure of lassa virus L protein (well-resolved endonuclease) [apo-ENDO]
[more info...]
Chain information for 7oe3_1520-1790.pdb #3
---
Chain | Description
L | RNA-directed RNA polymerase L
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ojn_430-620.pdb
Chain information for 7ojn_430-620.pdb #4
---
Chain | Description
L | No description available
> ui tool show "Show Sequence Viewer"
> sequence chain #2/L
Alignment identifier is 2/L
> select #2/L:262-272,284-293,296-302,311-319,321-335,345-365
625 atoms, 634 bonds, 73 residues, 1 model selected
> select clear
> open
> /Users/gabriele/Desktop/output/AF3_INFERENCE_WITH_TEMPLATES/bantou_dsrna_7ojk_7ojk/bantou_dsrna_7ojk_data_7ojk/bantou_dsrna_7ojk_data_7ojk_model.cif
Chain information for bantou_dsrna_7ojk_data_7ojk_model.cif #5
---
Chain | Description
A | .
B | .
C | .
Color bantou_dsrna_7ojk_data_7ojk_model.cif by residue attribute pLDDT_score
Computing secondary structure
> open
> /Users/gabriele/Desktop/output/AF3_INFERENCE_WITHOUT_TEMPLATES/bantou_dsrna_7ojk/bantou_dsrna_7ojk/bantou_dsrna_7ojk_model.cif
Chain information for bantou_dsrna_7ojk_model.cif #6
---
Chain | Description
A | .
B | .
C | .
Color bantou_dsrna_7ojk_model.cif by residue attribute pLDDT_score
Computing secondary structure
> hide #6 models
> hide #5 models
> hide #4 models
> hide #!3 models
> hide #!2 models
> hide #!1 models
> show #5 models
> show #6 models
> hide #6 models
> hide #5 models
> show #6 models
> view clip false
> hide #6 models
> show #5 models
> show #6 models
> mmaker #5 to #6
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker bantou_dsrna_7ojk_model.cif, chain A (#6) with
bantou_dsrna_7ojk_data_7ojk_model.cif, chain A (#5), sequence alignment score
= 11351.2
RMSD between 2026 pruned atom pairs is 0.933 angstroms; (across all 2217
pairs: 1.957)
> hide #6 models
> show #6 models
> hide #6 models
> show #6 models
> hide #6 models
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7ojk/250428/bantou289.B99990002.pdb
Chain information for bantou289.B99990002.pdb #7
---
Chain | Description
A | No description available
B | No description available
C | No description available
Computing secondary structure
> mmaker #5-6 to #7
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker bantou289.B99990002.pdb, chain A (#7) with
bantou_dsrna_7ojk_data_7ojk_model.cif, chain A (#5), sequence alignment score
= 10760.2
RMSD between 1012 pruned atom pairs is 1.250 angstroms; (across all 2217
pairs: 24.705)
Matchmaker bantou289.B99990002.pdb, chain A (#7) with
bantou_dsrna_7ojk_model.cif, chain A (#6), sequence alignment score = 10729.6
RMSD between 857 pruned atom pairs is 1.324 angstroms; (across all 2217 pairs:
24.513)
> view clip false
> hide #7 models
> show #7 models
> hide #5 models
> show #6 models
> hide #6 models
> show #5 models
> hide #7 models
> show #7 models
> hide #5 models
> show #5 models
> hide #7 models
> hide #5 models
> show #!1 models
> show #7 models
> mmaker #7 tp #1
> matchmaker #7 tp #1
Expected a keyword
> mmaker #7 to #1
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea, chain L (#1) with bantou289.B99990002.pdb, chain A (#7),
sequence alignment score = 9881.8
RMSD between 833 pruned atom pairs is 1.244 angstroms; (across all 1432 pairs:
19.008)
> hide #7 models
> show #!2 models
> show #!3 models
> show #4 models
> open
> /Users/gabriele/Desktop/output/AF3_INFERENCE_WITH_TEMPLATES/bantou_dsrna_7ojk_7ojk/bantou_dsrna_7ojk_data_7ojk/seed-1_sample-0/model.cif
Chain information for model.cif #8
---
Chain | Description
A | .
B | .
C | .
Color model.cif by residue attribute pLDDT_score
Computing secondary structure
> hide #4 models
> hide #!3 models
> hide #!2 models
> hide #!1 models
> open
> /Users/gabriele/Desktop/output/AF3_INFERENCE_WITH_TEMPLATES/bantou_dsrna_7ojk_7ojk/bantou_dsrna_7ojk_data_7ojk/seed-1_sample-1/model.cif
Chain information for model.cif #9
---
Chain | Description
A | .
B | .
C | .
Color model.cif by residue attribute pLDDT_score
Computing secondary structure
> open
> /Users/gabriele/Desktop/output/AF3_INFERENCE_WITH_TEMPLATES/bantou_dsrna_7ojk_7ojk/bantou_dsrna_7ojk_data_7ojk/seed-1_sample-2/model.cif
Chain information for model.cif #10
---
Chain | Description
A | .
B | .
C | .
Color model.cif by residue attribute pLDDT_score
Computing secondary structure
> open
> /Users/gabriele/Desktop/output/AF3_INFERENCE_WITH_TEMPLATES/bantou_dsrna_7ojk_7ojk/bantou_dsrna_7ojk_data_7ojk/seed-1_sample-3/model.cif
Chain information for model.cif #11
---
Chain | Description
A | .
B | .
C | .
Color model.cif by residue attribute pLDDT_score
Computing secondary structure
> open
> /Users/gabriele/Desktop/output/AF3_INFERENCE_WITH_TEMPLATES/bantou_dsrna_7ojk_7ojk/bantou_dsrna_7ojk_data_7ojk/seed-1_sample-4/model.cif
Chain information for model.cif #12
---
Chain | Description
A | .
B | .
C | .
Color model.cif by residue attribute pLDDT_score
Computing secondary structure
> hide #9 models
> hide #10 models
> hide #11 models
> hide #12 models
> show #9 models
> hide #8 models
> hide #9 models
> show #10 models
> hide #10 models
> show #11 models
> hide #11 models
> show #12 models
> close #5-6,8-12
> open
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_unrelaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_unrelaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb
#5
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_unrelaxed_rank_002_alphafold2_ptm_model_1_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_unrelaxed_rank_002_alphafold2_ptm_model_1_seed_000.pdb
#6
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_unrelaxed_rank_003_alphafold2_ptm_model_4_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_unrelaxed_rank_003_alphafold2_ptm_model_4_seed_000.pdb
#8
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_unrelaxed_rank_004_alphafold2_ptm_model_3_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_unrelaxed_rank_004_alphafold2_ptm_model_3_seed_000.pdb
#9
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_unrelaxed_rank_005_alphafold2_ptm_model_5_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_unrelaxed_rank_005_alphafold2_ptm_model_5_seed_000.pdb
#10
---
Chain | Description
A | No description available
Computing secondary structure
> hide #6 models
> hide #5 models
> hide #10 models
> hide #9 models
> hide #8 models
> show #5 models
> mmaker #5-6 to #7
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker bantou289.B99990002.pdb, chain A (#7) with
_L_protein_Bantou289_m_unrelaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb,
chain A (#5), sequence alignment score = 10852
RMSD between 1217 pruned atom pairs is 0.844 angstroms; (across all 2217
pairs: 2.345)
Matchmaker bantou289.B99990002.pdb, chain A (#7) with
_L_protein_Bantou289_m_unrelaxed_rank_002_alphafold2_ptm_model_1_seed_000.pdb,
chain A (#6), sequence alignment score = 10837
RMSD between 1561 pruned atom pairs is 0.967 angstroms; (across all 2217
pairs: 1.968)
> mmaker #8-10 to #7
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker bantou289.B99990002.pdb, chain A (#7) with
_L_protein_Bantou289_m_unrelaxed_rank_003_alphafold2_ptm_model_4_seed_000.pdb,
chain A (#8), sequence alignment score = 10638.7
RMSD between 792 pruned atom pairs is 1.322 angstroms; (across all 2217 pairs:
20.124)
Matchmaker bantou289.B99990002.pdb, chain A (#7) with
_L_protein_Bantou289_m_unrelaxed_rank_004_alphafold2_ptm_model_3_seed_000.pdb,
chain A (#9), sequence alignment score = 10607.2
RMSD between 731 pruned atom pairs is 1.265 angstroms; (across all 2217 pairs:
15.934)
Matchmaker bantou289.B99990002.pdb, chain A (#7) with
_L_protein_Bantou289_m_unrelaxed_rank_005_alphafold2_ptm_model_5_seed_000.pdb,
chain A (#10), sequence alignment score = 10703.8
RMSD between 901 pruned atom pairs is 1.260 angstroms; (across all 2217 pairs:
23.028)
> show #6 models
> hide #5 models
> hide #6 models
> show #8 models
> hide #8 models
> show #9 models
> show #10 models
> hide #10 models
> hide #9 models
> show #5 models
> show #7 models
> show #6 models
> show #8 models
> hide #8 models
> show #9 models
> show #8 models
> show #10 models
> hide #10 models
> hide #9 models
> hide #8 models
> hide #7 models
> hide #6 models
> ui tool show "AlphaFold Error Plot"
> alphafold pae #10 file
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_scores_rank_005_alphafold2_ptm_model_5_seed_000.json
> color bfactor #10 palette alphafold
17806 atoms, 2217 residues, atom bfactor range 25 to 90.2
> color bfactor #10 palette alphafold
17806 atoms, 2217 residues, atom bfactor range 25 to 90.2
> ui tool show "AlphaFold Error Plot"
> alphafold pae #5 file
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_scores_rank_001_alphafold2_ptm_model_2_seed_000.json
> color bfactor #5 palette alphafold
17806 atoms, 2217 residues, atom bfactor range 37.3 to 97.1
> show #7 models
> hide #5 models
> show #5 models
> hide #5 models
> show #6 models
> show #5 models
> hide #6 models
> hide #7 models
> ui tool show "Show Sequence Viewer"
> sequence chain #3/L
Alignment identifier is 3/L
> show #7 models
> show #8 models
> show #9 models
> show #10 models
> hide #8 models
> hide #9 models
> hide #10 models
> hide #7 models
> hide #5 models
> ui tool show "Show Sequence Viewer"
> sequence chain #4/L
Alignment identifier is 4/L
> select
> #4/L:431-434,445-449,452-459,475-479,491-510,521-526,576-580,587-601,610-619
620 atoms, 620 bonds, 78 residues, 1 model selected
> select #4/L:468-470,528-530,533-539,546-550,558-564,571-575
251 atoms, 252 bonds, 30 residues, 1 model selected
> select clear
> ui tool show "Show Sequence Viewer"
> sequence chain #1/E
Alignment identifier is 1/E
> ui tool show "Show Sequence Viewer"
> sequence chain #1/L
Alignment identifier is 1/L
> select
> #1/L:2-16,19-32,34-58,68-76,108-134,153-175,179-191,200-206,211-223,230-251,262-272,284-293,296-303,321-334,343-365,385-404,412-434,438-443,445-449,453-459,491-510,576-580,586-601,608-628,630-648,655-660,666-684,691-709,715-735,746-762,780-793,1090-1096,1137-1158,1166-1182,1193-1210,1219-1236,1242-1259,1267-1279,1297-1320,1338-1366,1396-1406,1412-1431,1433-1451,1465-1471,1473-1486,1490-1506,1524-1533,1539-1544,1579-1589,1595-1608,1612-1626,1638-1649,1674-1679,1684-1705,1778-1788,1796-1800,1812-1817
6902 atoms, 6962 bonds, 844 residues, 1 model selected
> select clear
> select
> #1/L:2-16,19-32,34-58,68-76,108-134,153-175,179-191,200-206,211-223,230-251,262-272,284-293,296-303,321-334,343-365,385-404,412-434,438-443,445-449,453-459,491-510,576-580,586-601,608-628,630-648,655-660,666-684,691-709,715-735,746-762,780-793,1090-1096,1137-1158,1166-1182,1193-1210,1219-1236,1242-1259,1267-1279,1297-1320,1338-1366,1396-1406,1412-1431,1433-1451,1465-1471,1473-1486,1490-1506,1524-1533,1539-1544,1579-1589,1595-1608,1612-1626,1638-1649,1674-1679,1684-1705,1778-1788,1796-1800,1812-1817
6902 atoms, 6962 bonds, 844 residues, 1 model selected
> select clear
> select
> #1/L:2-16,19-32,34-58,68-76,108-134,153-175,179-191,200-206,211-223,230-251,262-272,284-293,296-303,321-334,343-365,385-404,412-434,438-443,445-449,453-459,491-510,576-580,586-601,608-628,630-648,655-660,666-684,691-709,715-735,746-762,780-793,1090-1096,1137-1158,1166-1182,1193-1210,1219-1236,1242-1259,1267-1279,1297-1320,1338-1366,1396-1406,1412-1431,1433-1451,1465-1471,1473-1486,1490-1506,1524-1533,1539-1544,1579-1589,1595-1608,1612-1626,1638-1649,1674-1679,1684-1705,1778-1788,1796-1800,1812-1817
6902 atoms, 6962 bonds, 844 residues, 1 model selected
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ckl_alphabundle_fit.pdb
Chain information for 7ckl_alphabundle_fit.pdb #11
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7och_260-380_fit.pdb
Chain information for 7och_260-380_fit.pdb #12
---
Chain | Description
L | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oe3_1520-1790_fit.pdb
Chain information for 7oe3_1520-1790_fit.pdb #14
---
Chain | Description
L | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oea_fit.pdb
Chain information for 7oea_fit.pdb #15
---
Chain | Description
L | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ojn_430-620_fit.pdb
Chain information for 7ojn_430-620_fit.pdb #16
---
Chain | Description
L | No description available
Computing secondary structure
> hide #!12 models
> hide #!14 models
> hide #!15 models
> hide #16 models
> show #!15 models
> mmaker #11 to #15
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea_fit.pdb, chain L (#15) with 7ckl_alphabundle_fit.pdb, chain A
(#11), sequence alignment score = 1117.5
RMSD between 273 pruned atom pairs is 0.994 angstroms; (across all 404 pairs:
21.871)
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ckl_alphabundle_fit.pdb
> models #11
> hide #!11 models
> show #!12 models
> mmaker #12 to #15
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea_fit.pdb, chain L (#15) with 7och_260-380_fit.pdb, chain L
(#12), sequence alignment score = 481.6
RMSD between 88 pruned atom pairs is 1.129 angstroms; (across all 104 pairs:
1.916)
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ckl_alphabundle_fit.pdb
> models #11
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7och_260-380_fit.pdb
> models #12
> hide #!12 models
> show #!13 models
> show #!11 models
> hide #!11 models
> show #!11 models
> hide #!11 models
> show #!11 models
> hide #!11 models
> mmaker #13 to #15
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea_fit.pdb, chain L (#15) with 7ckl_alphabundle.pdb, chain A
(#13), sequence alignment score = 4720.4
RMSD between 276 pruned atom pairs is 1.001 angstroms; (across all 336 pairs:
1.707)
> show #!11 models
> hide #!11 models
> show #!11 models
> hide #!13 models
> show #!13 models
> hide #!11 models
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ckl_alphabundle_fit.pdb
> models #13
> hide #!13 models
> show #!14 models
> mmaker #14 to #15
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea_fit.pdb, chain L (#15) with 7oe3_1520-1790_fit.pdb, chain L
(#14), sequence alignment score = 931.4
RMSD between 189 pruned atom pairs is 1.188 angstroms; (across all 207 pairs:
1.935)
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oe3_1520-1790_fit.pdb
> models #14
> hide #!14 models
> show #16 models
> mmaker #16 to #15
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea_fit.pdb, chain L (#15) with 7ojn_430-620_fit.pdb, chain L
(#16), sequence alignment score = 766.6
RMSD between 170 pruned atom pairs is 0.741 angstroms; (across all 174 pairs:
0.888)
> save
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ojn_430-620_fit.pdb
> models #16
> hide #16 models
> show #16 models
> show #!14 models
> show #!13 models
> close #16#11-15
> close #4#1-3
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oea_fit.pdb
Chain information for 7oea_fit.pdb #1
---
Chain | Description
L | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ojn_430-620_fit.pdb
Chain information for 7ojn_430-620_fit.pdb #2
---
Chain | Description
L | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7och_260-380_fit.pdb
Chain information for 7och_260-380_fit.pdb #3
---
Chain | Description
L | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ckl_alphabundle_fit.pdb
7ckl_alphabundle_fit.pdb title:
Structure of lassa virus polymerase bound to Z matrix protein [more info...]
Chain information for 7ckl_alphabundle_fit.pdb #4
---
Chain | Description
A | RNA-directed RNA polymerase L
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oe3_1520-1790_fit.pdb
Chain information for 7oe3_1520-1790_fit.pdb #11
---
Chain | Description
L | No description available
Computing secondary structure
> hide #!1 models
> hide #!3 models
> show #2#!4,11 atoms
> hide #2#!4,11 atoms
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oea.pdb
7oea.pdb title:
Lassa virus L protein bound to 3' promoter RNA (well-resolved polymerase core)
[3END-core] [more info...]
Chain information for 7oea.pdb #12
---
Chain | Description
E | 3' VRNA
L | RNA-directed RNA polymerase L
Non-standard residues in 7oea.pdb #12
---
MG — magnesium ion
ZN — zinc ion
10 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
> sequence chain #12/L
Alignment identifier is 12/L
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/250502/bantou289.B99990001.pdb
Chain information for bantou289.B99990001.pdb #13
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/250502/bantou289.B99990005.pdb
Chain information for bantou289.B99990005.pdb #14
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/250502/bantou289.B99990002.pdb
Chain information for bantou289.B99990002.pdb #15
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/250502/bantou289.B99990003.pdb
Chain information for bantou289.B99990003.pdb #16
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/250502/bantou289.B99990004.pdb
Chain information for bantou289.B99990004.pdb #17
---
Chain | Description
A | No description available
Computing secondary structure
> hide #!11 models
> hide #13 models
> hide #!12 models
> hide #14 models
> hide #15 models
> hide #16 models
> hide #17 models
> hide #!4 models
> hide #2 models
> show #13 models
> select #13/A:931-1089
1287 atoms, 1314 bonds, 159 residues, 1 model selected
> delete sel
> select #13/A:1818-2217
3173 atoms, 3247 bonds, 400 residues, 1 model selected
> delete sel
> select #13/A:795-850
429 atoms, 433 bonds, 56 residues, 1 model selected
> delete sel
> show #!1 models
> hide #!1 models
> show #!12 models
> mmaker #13-17 to #12
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker 7oea.pdb, chain L (#12) with bantou289.B99990001.pdb, chain A
(#13), sequence alignment score = 9949
RMSD between 216 pruned atom pairs is 0.831 angstroms; (across all 1416 pairs:
11.646)
Matchmaker 7oea.pdb, chain L (#12) with bantou289.B99990005.pdb, chain A
(#14), sequence alignment score = 10001.2
RMSD between 275 pruned atom pairs is 1.222 angstroms; (across all 1432 pairs:
11.576)
Matchmaker 7oea.pdb, chain L (#12) with bantou289.B99990002.pdb, chain A
(#15), sequence alignment score = 10031.2
RMSD between 248 pruned atom pairs is 1.087 angstroms; (across all 1432 pairs:
13.393)
Matchmaker 7oea.pdb, chain L (#12) with bantou289.B99990003.pdb, chain A
(#16), sequence alignment score = 9992.2
RMSD between 246 pruned atom pairs is 1.008 angstroms; (across all 1432 pairs:
12.388)
Matchmaker 7oea.pdb, chain L (#12) with bantou289.B99990004.pdb, chain A
(#17), sequence alignment score = 9952
RMSD between 223 pruned atom pairs is 1.134 angstroms; (across all 1432 pairs:
11.572)
> hide #!12 models
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oea_fit.pdb
Chain information for 7oea_fit.pdb #18
---
Chain | Description
L | No description available
Computing secondary structure
> close #2,5-10,14-17#1,3-4,11-13,18
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oea.pdb
7oea.pdb title:
Lassa virus L protein bound to 3' promoter RNA (well-resolved polymerase core)
[3END-core] [more info...]
Chain information for 7oea.pdb #1
---
Chain | Description
E | 3' VRNA
L | RNA-directed RNA polymerase L
Non-standard residues in 7oea.pdb #1
---
MG — magnesium ion
ZN — zinc ion
10 atoms have alternate locations. Control/examine alternate locations with
Altloc Explorer [start tool...] or the altlocs command.
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oea_fit.pdb
Chain information for 7oea_fit.pdb #2
---
Chain | Description
L | No description available
Computing secondary structure
> close #2
> close #1
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/250502/bantou289.B99990001.pdb
Chain information for bantou289.B99990001.pdb #1
---
Chain | Description
A | No description available
Computing secondary structure
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/250502/bantou289.B99990002.pdb
Chain information for bantou289.B99990002.pdb #2
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/250502/bantou289.B99990003.pdb
Chain information for bantou289.B99990003.pdb #3
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/250502/bantou289.B99990004.pdb
Chain information for bantou289.B99990004.pdb #4
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/250502/bantou289.B99990005.pdb
Chain information for bantou289.B99990005.pdb #5
---
Chain | Description
A | No description available
Computing secondary structure
> select #1/A:931-1089
1287 atoms, 1314 bonds, 159 residues, 1 model selected
> delete sel
> select #2/A:931-1089
1287 atoms, 1314 bonds, 159 residues, 1 model selected
> delete sel
> select #3/A:931-1089
1287 atoms, 1314 bonds, 159 residues, 1 model selected
> delete sel
> select #4-5/A:931-1089
2574 atoms, 2628 bonds, 318 residues, 2 models selected
> delete sel
> select #1-5/A:795-850
2145 atoms, 2165 bonds, 280 residues, 5 models selected
> delete sel
> select #1-5/A:1818-2217
15865 atoms, 16235 bonds, 2000 residues, 5 models selected
> delete sel
> open
> /Users/gabriele/Desktop/out_norelaxation/_L_protein_Bantou289_m_unrelaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_unrelaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb
#6
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out_norelaxation/_L_protein_Bantou289_m_unrelaxed_rank_002_alphafold2_ptm_model_1_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_unrelaxed_rank_002_alphafold2_ptm_model_1_seed_000.pdb
#7
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out_norelaxation/_L_protein_Bantou289_m_unrelaxed_rank_003_alphafold2_ptm_model_4_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_unrelaxed_rank_003_alphafold2_ptm_model_4_seed_000.pdb
#8
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out_norelaxation/_L_protein_Bantou289_m_unrelaxed_rank_004_alphafold2_ptm_model_3_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_unrelaxed_rank_004_alphafold2_ptm_model_3_seed_000.pdb
#9
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out_norelaxation/_L_protein_Bantou289_m_unrelaxed_rank_005_alphafold2_ptm_model_5_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_unrelaxed_rank_005_alphafold2_ptm_model_5_seed_000.pdb
#10
---
Chain | Description
A | No description available
Computing secondary structure
> open
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_relaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_relaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb
#11
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_relaxed_rank_002_alphafold2_ptm_model_1_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_relaxed_rank_002_alphafold2_ptm_model_1_seed_000.pdb
#12
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_relaxed_rank_003_alphafold2_ptm_model_4_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_relaxed_rank_003_alphafold2_ptm_model_4_seed_000.pdb
#13
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_relaxed_rank_004_alphafold2_ptm_model_3_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_relaxed_rank_004_alphafold2_ptm_model_3_seed_000.pdb
#14
---
Chain | Description
A | No description available
> open
> /Users/gabriele/Desktop/out/_L_protein_Bantou289_m_relaxed_rank_005_alphafold2_ptm_model_5_seed_000.pdb
Chain information for
_L_protein_Bantou289_m_relaxed_rank_005_alphafold2_ptm_model_5_seed_000.pdb
#15
---
Chain | Description
A | No description available
Computing secondary structure
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7ojk/250428/bantou289.B99990002.pdb
Chain information for bantou289.B99990002.pdb #16
---
Chain | Description
A | No description available
B | No description available
C | No description available
Computing secondary structure
> hide #!1 models
> hide #!2 models
> hide #!3 models
> hide #!4 models
> hide #!5 models
> mmaker #6-15 to #16
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker bantou289.B99990002.pdb, chain A (#16) with
_L_protein_Bantou289_m_unrelaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb,
chain A (#6), sequence alignment score = 10852
RMSD between 1217 pruned atom pairs is 0.844 angstroms; (across all 2217
pairs: 2.345)
Matchmaker bantou289.B99990002.pdb, chain A (#16) with
_L_protein_Bantou289_m_unrelaxed_rank_002_alphafold2_ptm_model_1_seed_000.pdb,
chain A (#7), sequence alignment score = 10837
RMSD between 1561 pruned atom pairs is 0.967 angstroms; (across all 2217
pairs: 1.968)
Matchmaker bantou289.B99990002.pdb, chain A (#16) with
_L_protein_Bantou289_m_unrelaxed_rank_003_alphafold2_ptm_model_4_seed_000.pdb,
chain A (#8), sequence alignment score = 10638.7
RMSD between 792 pruned atom pairs is 1.322 angstroms; (across all 2217 pairs:
20.124)
Matchmaker bantou289.B99990002.pdb, chain A (#16) with
_L_protein_Bantou289_m_unrelaxed_rank_004_alphafold2_ptm_model_3_seed_000.pdb,
chain A (#9), sequence alignment score = 10607.2
RMSD between 731 pruned atom pairs is 1.265 angstroms; (across all 2217 pairs:
15.934)
Matchmaker bantou289.B99990002.pdb, chain A (#16) with
_L_protein_Bantou289_m_unrelaxed_rank_005_alphafold2_ptm_model_5_seed_000.pdb,
chain A (#10), sequence alignment score = 10703.8
RMSD between 901 pruned atom pairs is 1.260 angstroms; (across all 2217 pairs:
23.028)
Matchmaker bantou289.B99990002.pdb, chain A (#16) with
_L_protein_Bantou289_m_relaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb,
chain A (#11), sequence alignment score = 10811.8
RMSD between 1217 pruned atom pairs is 0.857 angstroms; (across all 2217
pairs: 2.345)
Matchmaker bantou289.B99990002.pdb, chain A (#16) with
_L_protein_Bantou289_m_relaxed_rank_002_alphafold2_ptm_model_1_seed_000.pdb,
chain A (#12), sequence alignment score = 10817.8
RMSD between 1561 pruned atom pairs is 0.971 angstroms; (across all 2217
pairs: 1.970)
Matchmaker bantou289.B99990002.pdb, chain A (#16) with
_L_protein_Bantou289_m_relaxed_rank_003_alphafold2_ptm_model_4_seed_000.pdb,
chain A (#13), sequence alignment score = 10663.3
RMSD between 791 pruned atom pairs is 1.317 angstroms; (across all 2217 pairs:
20.134)
Matchmaker bantou289.B99990002.pdb, chain A (#16) with
_L_protein_Bantou289_m_relaxed_rank_004_alphafold2_ptm_model_3_seed_000.pdb,
chain A (#14), sequence alignment score = 10619.2
RMSD between 724 pruned atom pairs is 1.258 angstroms; (across all 2217 pairs:
15.933)
Matchmaker bantou289.B99990002.pdb, chain A (#16) with
_L_protein_Bantou289_m_relaxed_rank_005_alphafold2_ptm_model_5_seed_000.pdb,
chain A (#15), sequence alignment score = 10715.2
RMSD between 900 pruned atom pairs is 1.260 angstroms; (across all 2217 pairs:
23.027)
> hide #15 models
> hide #14 models
> hide #13 models
> hide #12 models
> hide #11 models
> hide #10 models
> hide #9 models
> hide #8 models
> hide #7 models
> hide #6 models
> show #6 models
> show #11 models
> hide #16 models
> mmaker #6 to #11
Computing secondary structure
Parameters
---
Chain pairing | bb
Alignment algorithm | Needleman-Wunsch
Similarity matrix | BLOSUM-62
SS fraction | 0.3
Gap open (HH/SS/other) | 18/18/6
Gap extend | 1
SS matrix | | | H | S | O
---|---|---|---
H | 6 | -9 | -6
S | | 6 | -6
O | | | 4
Iteration cutoff | 2
Matchmaker
_L_protein_Bantou289_m_relaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb,
chain A (#11) with
_L_protein_Bantou289_m_unrelaxed_rank_001_alphafold2_ptm_model_2_seed_000.pdb,
chain A (#6), sequence alignment score = 11294.2
RMSD between 2217 pruned atom pairs is 0.103 angstroms; (across all 2217
pairs: 0.103)
> show #6,11 atoms
> hide #6,11 atoms
> show #6,11 atoms
> hide #11 models
> ui tool show Clashes
> clashes ignoreHiddenModels true
270 clashes
> hide #6 models
> show #11 models
> clashes ignoreHiddenModels true
4 clashes
> show #6 models
> hide #6 models
> hide #11 models
> show #6 models
> clashes ignoreHiddenModels true
270 clashes
> show #11 models
> show #12 models
> hide #12 models
> open
> /Users/gabriele/Downloads/_L_protein_Bantou289_m_relaxed_rank_001_alphafold2_ptm_model_2_seed_000_1FH.pdb
Summary of feedback from opening
/Users/gabriele/Downloads/_L_protein_Bantou289_m_relaxed_rank_001_alphafold2_ptm_model_2_seed_000_1FH.pdb
---
warnings | Ignored bad PDB record found on line 1
Duplicate atom serial number found: 0
Duplicate atom serial number found: 0
Duplicate atom serial number found: 0
Duplicate atom serial number found: 0
Duplicate atom serial number found: 0
17807 messages similar to the above omitted
Chain information for
_L_protein_Bantou289_m_relaxed_rank_001_alphafold2_ptm_model_2_seed_000_1FH.pdb
#18
---
Chain | Description
A | No description available
Computing secondary structure
> hide #17 models
> hide #11 models
> hide #6 models
> close #6-18
> show #!1 models
> show #!2 models
> show #!3 models
> show #!4 models
> show #!5 models
> hide #!1 models
> hide #!2 models
> hide #!3 models
> hide #!4 models
> hide #!5 models
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ckl_alphabundle_fit.pdb
7ckl_alphabundle_fit.pdb title:
Structure of lassa virus polymerase bound to Z matrix protein [more info...]
Chain information for 7ckl_alphabundle_fit.pdb #6
---
Chain | Description
A | RNA-directed RNA polymerase L
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7och_260-380_fit.pdb
Chain information for 7och_260-380_fit.pdb #7
---
Chain | Description
L | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oe3_1520-1790_fit.pdb
Chain information for 7oe3_1520-1790_fit.pdb #8
---
Chain | Description
L | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7oea_fit.pdb
Chain information for 7oea_fit.pdb #9
---
Chain | Description
L | No description available
> open
> /Users/gabriele/Desktop/command_line_tools/modeller/l_protein/7oea/7ojn_430-620_fit.pdb
Chain information for 7ojn_430-620_fit.pdb #10
---
Chain | Description
L | No description available
Computing secondary structure
> show #!1 models
> show #!2 models
> show #!3 models
> show #!4 models
> show #!5 models
> hide #!5 models
> hide #!4 models
> hide #!3 models
> hide #!2 models
> hide #!1 models
> show #!1 models
> hide #!1 models
> hide #!6 models
> hide #!7 models
> hide #!8 models
> hide #!9 models
> hide #10 models
> open
> /Users/gabriele/Desktop/L_protein/L_protein_pdb/L_single_domain_consurf/7ckl_single_domain_consurf.pdb
Summary of feedback from opening
/Users/gabriele/Desktop/L_protein/L_protein_pdb/L_single_domain_consurf/7ckl_single_domain_consurf.pdb
---
warnings | Start residue of secondary structure not found: HELIX 9 AA9 ASN A 212 CYS A 221 1 10
Start residue of secondary structure not found: HELIX 10 AB1 HIS A 232 GLY A
252 1 21
Start residue of secondary structure not found: HELIX 11 AB2 GLU A 262 ASN A
272 1 11
Start residue of secondary structure not found: HELIX 12 AB3 SER A 283 LYS A
292 1 10
Start residue of secondary structure not found: HELIX 13 AB4 SER A 295 LEU A
301 1 7
77 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (1692 )
Cannot find LINK/SSBOND residue ASP (1192 )
Cannot find LINK/SSBOND residue ASP (1192 )
Cannot find LINK/SSBOND residue ASP (1334 )
Cannot find LINK/SSBOND residue GLU (1384 )
9 messages similar to the above omitted
7ckl_single_domain_consurf.pdb title:
Structure of lassa virus polymerase bound to Z matrix protein [more info...]
Chain information for 7ckl_single_domain_consurf.pdb #11
---
Chain | Description
A | RNA-directed RNA polymerase L
B | ring finger protein Z
C | No description available
F | No description available
G | No description available
H | No description available
I | No description available
K | No description available
N | No description available
O | No description available
P | No description available
Q | No description available
S | No description available
T | No description available
Y | No description available
Non-standard residues in 7ckl_single_domain_consurf.pdb #11
---
MN — manganese (II) ion
THR — (THR)
ZN — zinc ion
> hide #!11 models
> close #11
> open
> /Users/gabriele/Desktop/L_protein/L_protein_pdb/consurf_models/my_msa_consurf_7ckl.pdb
my_msa_consurf_7ckl.pdb title:
Structure of lassa virus polymerase bound to Z matrix protein [more info...]
Chain information for my_msa_consurf_7ckl.pdb #11
---
Chain | Description
A | RNA-directed RNA polymerase L
B | ring finger protein Z
Non-standard residues in my_msa_consurf_7ckl.pdb #11
---
MN — manganese (II) ion
ZN — zinc ion
> hide #!11.2 models
> ui tool show "Render/Select by Attribute"
> color byattribute a:bfactor #!11 target absc palette
> 0,#a02760:4.5,white:9,#0c7d82
11521 atoms, 1467 residues, atom bfactor range 0 to 9
Cell requested for row 0 is out of bounds for table with 13 rows! Resizing
table model.
> color byattribute a:bfactor #!11 target absc palette
> 0,#0c7d82:4.5,white:9,#a02760
11521 atoms, 1467 residues, atom bfactor range 0 to 9
> set bgColor white
> set bgColor #ffffff00
> lighting soft
> select #11/L
Nothing selected
> select #11/A
11138 atoms, 11335 bonds, 22 pseudobonds, 1416 residues, 3 models selected
> show sel surfaces
> transparency (#!11 & sel) 60
> ui tool show PICKLUSTER
Please register the custom scheme 'pickluster' via
QWebEngineUrlScheme::registerScheme() before installing the custom scheme
handler.
Cluster information for my_msa_consurf_7ckl.pdb['A', 'B']
---
Cluster | Residues
1 | [['A', 'LYS', 263], ['A', 'ASP', 605], ['A', 'ASN', 607], ['A', 'GLU', 608], ['A', 'VAL', 650], ['A', 'SER', 651], ['A', 'VAL', 690], ['A', 'LYS', 691], ['A', 'SER', 692], ['A', 'MET', 693], ['A', 'MET', 694], ['A', 'THR', 695], ['A', 'PHE', 698], ['A', 'SER', 1183], ['A', 'MET', 1184], ['A', 'ALA', 1185], ['A', 'ARG', 1380], ['A', 'PHE', 1381], ['A', 'VAL', 1391], ['A', 'TRP', 1392], ['B', 'PRO', 28], ['B', 'PHE', 30], ['B', 'CYS', 31], ['B', 'LYS', 32], ['B', 'SER', 33], ['B', 'CYS', 34], ['B', 'TRP', 35], ['B', 'PHE', 36], ['B', 'ASN', 52], ['B', 'CYS', 53], ['B', 'LEU', 56], ['B', 'LEU', 57], ['B', 'GLY', 59], ['B', 'VAL', 60], ['B', 'PRO', 65]]
2 | [['A', 'HIS', 1348], ['B', 'ASN', 38]]
Calculation of interface was successful
Interactions in clusters in my_msa_consurf_7ckl.pdb['A', 'B']
---
Cluster | Interactions
1 | [[['A', 'LYS', 263], ['B', 'PHE', 36]], [['A', 'ASP', 605], ['B', 'VAL', 60]], [['A', 'ASN', 607], ['B', 'LEU', 56]], [['A', 'ASN', 607], ['B', 'VAL', 60]], [['A', 'ASN', 607], ['B', 'GLY', 59]], [['A', 'ASN', 607], ['B', 'LEU', 57]], [['A', 'GLU', 608], ['B', 'LEU', 56]], [['A', 'VAL', 650], ['B', 'PHE', 36]], [['A', 'VAL', 650], ['B', 'TRP', 35]], [['A', 'SER', 651], ['B', 'PHE', 36]], [['A', 'VAL', 690], ['B', 'LEU', 56]], [['A', 'LYS', 691], ['B', 'ASN', 52]], [['A', 'LYS', 691], ['B', 'CYS', 34]], [['A', 'LYS', 691], ['B', 'LEU', 56]], [['A', 'LYS', 691], ['B', 'CYS', 53]], [['A', 'SER', 692], ['B', 'SER', 33]], [['A', 'SER', 692], ['B', 'LEU', 56]], [['A', 'SER', 692], ['B', 'LEU', 57]], [['A', 'SER', 692], ['B', 'CYS', 34]], [['A', 'SER', 692], ['B', 'CYS', 53]], [['A', 'MET', 693], ['B', 'SER', 33]], [['A', 'MET', 693], ['B', 'PRO', 65]], [['A', 'MET', 693], ['B', 'LEU', 57]], [['A', 'MET', 693], ['B', 'CYS', 34]], [['A', 'MET', 694], ['B', 'TRP', 35]], [['A', 'MET', 694], ['B', 'SER', 33]], [['A', 'MET', 694], ['B', 'CYS', 34]], [['A', 'THR', 695], ['B', 'TRP', 35]], [['A', 'THR', 695], ['B', 'LYS', 32]], [['A', 'THR', 695], ['B', 'SER', 33]], [['A', 'PHE', 698], ['B', 'TRP', 35]], [['A', 'SER', 1183], ['B', 'PRO', 28]], [['A', 'MET', 1184], ['B', 'PRO', 28]], [['A', 'ALA', 1185], ['B', 'PHE', 30]], [['A', 'ALA', 1185], ['B', 'PRO', 28]], [['A', 'ARG', 1380], ['B', 'PHE', 30]], [['A', 'PHE', 1381], ['B', 'PHE', 30]], [['A', 'PHE', 1381], ['B', 'TRP', 35]], [['A', 'VAL', 1391], ['B', 'TRP', 35]], [['A', 'TRP', 1392], ['B', 'LYS', 32]], [['A', 'TRP', 1392], ['B', 'TRP', 35]], [['A', 'TRP', 1392], ['B', 'CYS', 31]]]
2 | [[['A', 'HIS', 1348], ['B', 'ASN', 38]]]
Mean pLDDT of clusters in my_msa_consurf_7ckl.pdb['A', 'B']
---
Cluster | Mean pLDDT
1 | 8.23
2 | 9.0
> hide #!11 surfaces
> select #11 /A :263 #11 /A :605 #11 /A :607 #11 /A :608 #11 /A :650 #11 /A
> :651 #11 /A :690 #11 /A :691 #11 /A :692 #11 /A :693 #11 /A :694 #11 /A :695
> #11 /A :698 #11 /A :1183 #11 /A :1184 #11 /A :1185 #11 /A :1380 #11 /A :1381
> #11 /A :1391 #11 /A :1392 #11 /B :28 #11 /B :30 #11 /B :31 #11 /B :32 #11 /B
> :33 #11 /B :34 #11 /B :35 #11 /B :36 #11 /B :52 #11 /B :53 #11 /B :56 #11 /B
> :57 #11 /B :59 #11 /B :60 #11 /B :65
283 atoms, 278 bonds, 292 pseudobonds, 35 residues, 2 models selected
> select #11/B:25-73
381 atoms, 391 bonds, 49 residues, 1 model selected
> hide sel cartoons
> show sel surfaces
> hide sel surfaces
> show sel cartoons
> ~select
Nothing selected
Drag select of 100 residues
> select add #11/A:1356
817 atoms, 4 bonds, 101 residues, 2 models selected
Drag select of 4 atoms, 153 residues, 4 bonds, 12 pseudobonds
> select subtract #11/B:35
1299 atoms, 8 bonds, 12 pseudobonds, 155 residues, 4 models selected
Drag select of 64 residues
> select subtract #11/A:598
1237 atoms, 8 bonds, 12 pseudobonds, 150 residues, 3 models selected
Drag select of 51 residues
> select clear
Drag select of 29 atoms, 278 residues, 58 pseudobonds, 23 bonds
> select subtract #11/B:29
2254 atoms, 23 bonds, 58 pseudobonds, 279 residues, 5 models selected
> select subtract #11/B:28
2247 atoms, 23 bonds, 57 pseudobonds, 278 residues, 5 models selected
Drag select of 8 atoms, 16 residues, 3 pseudobonds, 5 bonds
Drag select of 4 atoms, 21 residues, 1 pseudobonds, 2 bonds
> select subtract #11/B:69
2253 atoms, 24 bonds, 57 pseudobonds, 280 residues, 5 models selected
> select subtract #11/B:64
2250 atoms, 22 bonds, 56 pseudobonds, 279 residues, 5 models selected
> select subtract #11/B:71
2242 atoms, 22 bonds, 56 pseudobonds, 278 residues, 5 models selected
> select subtract #11/B:44
2238 atoms, 21 bonds, 56 pseudobonds, 277 residues, 5 models selected
> select subtract #11/B:47
2235 atoms, 15 bonds, 56 pseudobonds, 276 residues, 5 models selected
> select subtract #11/B:25
2225 atoms, 15 bonds, 56 pseudobonds, 275 residues, 5 models selected
> select subtract #11/B:102@ZN
2224 atoms, 15 bonds, 56 pseudobonds, 274 residues, 5 models selected
> select subtract #11/B:54
2216 atoms, 15 bonds, 56 pseudobonds, 273 residues, 5 models selected
> select subtract #11/B:43
2207 atoms, 15 bonds, 56 pseudobonds, 272 residues, 5 models selected
> select add #11/B:54
2215 atoms, 22 bonds, 56 pseudobonds, 273 residues, 5 models selected
> select subtract #11/B:54
2207 atoms, 15 bonds, 56 pseudobonds, 272 residues, 5 models selected
> select subtract #11/B:55
2200 atoms, 15 bonds, 56 pseudobonds, 271 residues, 5 models selected
> select add #11/B:28
2207 atoms, 22 bonds, 56 pseudobonds, 272 residues, 5 models selected
> select subtract #11/B:27
2203 atoms, 22 bonds, 56 pseudobonds, 271 residues, 5 models selected
> select subtract #11/B:37
2194 atoms, 22 bonds, 56 pseudobonds, 270 residues, 5 models selected
> select subtract #11/B:36
2183 atoms, 22 bonds, 56 pseudobonds, 269 residues, 5 models selected
> select subtract #11/B:35
2169 atoms, 22 bonds, 56 pseudobonds, 268 residues, 5 models selected
> select subtract #11/B:34
2166 atoms, 20 bonds, 39 pseudobonds, 267 residues, 5 models selected
> select add #11/B:34
2172 atoms, 25 bonds, 39 pseudobonds, 268 residues, 5 models selected
> select subtract #11/B:34
2166 atoms, 20 bonds, 39 pseudobonds, 267 residues, 5 models selected
> select add #11/B:34
2172 atoms, 25 bonds, 39 pseudobonds, 268 residues, 5 models selected
> select subtract #11/B:34
2166 atoms, 20 bonds, 39 pseudobonds, 267 residues, 5 models selected
> select subtract #11/B:28
2159 atoms, 13 bonds, 39 pseudobonds, 266 residues, 5 models selected
> select subtract #11/B:30
2148 atoms, 13 bonds, 39 pseudobonds, 265 residues, 5 models selected
> select subtract #11/B:31
2143 atoms, 12 bonds, 39 pseudobonds, 264 residues, 5 models selected
> select subtract #11/B:32
2134 atoms, 12 bonds, 39 pseudobonds, 263 residues, 5 models selected
> select subtract #11/B:56
2126 atoms, 12 bonds, 39 pseudobonds, 262 residues, 5 models selected
> select subtract #11/B:33
2123 atoms, 10 bonds, 8 pseudobonds, 261 residues, 5 models selected
> select subtract #11/A:692
2117 atoms, 10 bonds, 7 pseudobonds, 260 residues, 4 models selected
> select add #11/A:692
2123 atoms, 15 bonds, 7 pseudobonds, 261 residues, 4 models selected
> select subtract #11/A:691
2114 atoms, 15 bonds, 5 pseudobonds, 260 residues, 3 models selected
> select add #11/A:691
2123 atoms, 23 bonds, 5 pseudobonds, 261 residues, 3 models selected
> show sel surfaces
> hide sel surfaces
> coulombic sel
The following residues are missing heavy (non-hydrogen) atoms, which may
result in inaccurate electrostatics:
my_msa_consurf_7ckl.pdb #11/A ARG 24
my_msa_consurf_7ckl.pdb #11/A LYS 121
my_msa_consurf_7ckl.pdb #11/A GLU 128
my_msa_consurf_7ckl.pdb #11/A ARG 161
my_msa_consurf_7ckl.pdb #11/A PHE 165
my_msa_consurf_7ckl.pdb #11/A GLU 179
my_msa_consurf_7ckl.pdb #11/A GLU 180
my_msa_consurf_7ckl.pdb #11/A ASN 846
my_msa_consurf_7ckl.pdb #11/A LYS 847
my_msa_consurf_7ckl.pdb #11/A LEU 848
my_msa_consurf_7ckl.pdb #11/A THR 849
my_msa_consurf_7ckl.pdb #11/A LEU 851
my_msa_consurf_7ckl.pdb #11/A VAL 853
my_msa_consurf_7ckl.pdb #11/A SER 854
my_msa_consurf_7ckl.pdb #11/A GLN 855
my_msa_consurf_7ckl.pdb #11/A LEU 856
my_msa_consurf_7ckl.pdb #11/A THR 857
my_msa_consurf_7ckl.pdb #11/A GLU 858
my_msa_consurf_7ckl.pdb #11/A VAL 859
my_msa_consurf_7ckl.pdb #11/A PHE 860
my_msa_consurf_7ckl.pdb #11/A SER 861
my_msa_consurf_7ckl.pdb #11/A ARG 862
my_msa_consurf_7ckl.pdb #11/A ASP 872
my_msa_consurf_7ckl.pdb #11/A TYR 873
my_msa_consurf_7ckl.pdb #11/A GLU 874
my_msa_consurf_7ckl.pdb #11/A TYR 875
my_msa_consurf_7ckl.pdb #11/A LYS 876
my_msa_consurf_7ckl.pdb #11/A VAL 877
my_msa_consurf_7ckl.pdb #11/A GLN 878
my_msa_consurf_7ckl.pdb #11/A GLN 879
my_msa_consurf_7ckl.pdb #11/A MET 881
my_msa_consurf_7ckl.pdb #11/A SER 882
my_msa_consurf_7ckl.pdb #11/A ASN 883
my_msa_consurf_7ckl.pdb #11/A LEU 884
my_msa_consurf_7ckl.pdb #11/A VAL 885
my_msa_consurf_7ckl.pdb #11/A LEU 886
my_msa_consurf_7ckl.pdb #11/A SER 888
my_msa_consurf_7ckl.pdb #11/A LYS 889
my_msa_consurf_7ckl.pdb #11/A GLN 890
my_msa_consurf_7ckl.pdb #11/A HIS 891
my_msa_consurf_7ckl.pdb #11/A ASP 901
my_msa_consurf_7ckl.pdb #11/A GLU 902
my_msa_consurf_7ckl.pdb #11/A ILE 903
my_msa_consurf_7ckl.pdb #11/A LEU 904
my_msa_consurf_7ckl.pdb #11/A LEU 905
my_msa_consurf_7ckl.pdb #11/A ASP 906
my_msa_consurf_7ckl.pdb #11/A SER 910
my_msa_consurf_7ckl.pdb #11/A THR 911
my_msa_consurf_7ckl.pdb #11/A GLN 915
my_msa_consurf_7ckl.pdb #11/A LEU 916
my_msa_consurf_7ckl.pdb #11/A LYS 917
my_msa_consurf_7ckl.pdb #11/A GLU 918
my_msa_consurf_7ckl.pdb #11/A THR 919
my_msa_consurf_7ckl.pdb #11/A VAL 920
my_msa_consurf_7ckl.pdb #11/A GLU 921
my_msa_consurf_7ckl.pdb #11/A LYS 922
my_msa_consurf_7ckl.pdb #11/A ILE 923
my_msa_consurf_7ckl.pdb #11/A VAL 924
my_msa_consurf_7ckl.pdb #11/A ASP 925
my_msa_consurf_7ckl.pdb #11/A GLN 926
my_msa_consurf_7ckl.pdb #11/A TYR 927
my_msa_consurf_7ckl.pdb #11/A ARG 928
my_msa_consurf_7ckl.pdb #11/A GLU 929
my_msa_consurf_7ckl.pdb #11/A PRO 930
my_msa_consurf_7ckl.pdb #11/A VAL 931
my_msa_consurf_7ckl.pdb #11/A LYS 1096
my_msa_consurf_7ckl.pdb #11/A PHE 1100
my_msa_consurf_7ckl.pdb #11/A VAL 1284
my_msa_consurf_7ckl.pdb #11/A LYS 1710
my_msa_consurf_7ckl.pdb #11/A ARG 1750
Using Amber 20 recommended default charges and atom types for standard
residues
Coulombic values for my_msa_consurf_7ckl.pdb_A SES surface #11.3: minimum,
-27.08, mean -1.50, maximum 19.17
To also show corresponding color key, enter the above coulombic command and
add key true
> coulombic sel
Coulombic values for my_msa_consurf_7ckl.pdb_A SES surface #11.3: minimum,
-27.08, mean -1.50, maximum 19.17
To also show corresponding color key, enter the above coulombic command and
add key true
> show sel surfaces
> hide sel surfaces
> show sel surfaces
> surface style #11.3 solid
> close #11
> open
> /Users/gabriele/Desktop/L_protein/L_protein_pdb/consurf_models/my_msa_consurf_7ckl.pdb
my_msa_consurf_7ckl.pdb title:
Structure of lassa virus polymerase bound to Z matrix protein [more info...]
Chain information for my_msa_consurf_7ckl.pdb #11
---
Chain | Description
A | RNA-directed RNA polymerase L
B | ring finger protein Z
Non-standard residues in my_msa_consurf_7ckl.pdb #11
---
MN — manganese (II) ion
ZN — zinc ion
> close #12
> hide #!11.2 models
> show #!11.2 models
> hide #11.1 models
> show #11.1 models
> hide #!11.2 models
> ui tool show PICKLUSTER
Please register the custom scheme 'pickluster' via
QWebEngineUrlScheme::registerScheme() before installing the custom scheme
handler.
Cluster information for my_msa_consurf_7ckl.pdb['A', 'B']
---
Cluster | Residues
1 | [['A', 'LYS', 263], ['A', 'ASP', 605], ['A', 'ASN', 607], ['A', 'GLU', 608], ['A', 'VAL', 650], ['A', 'SER', 651], ['A', 'VAL', 690], ['A', 'LYS', 691], ['A', 'SER', 692], ['A', 'MET', 693], ['A', 'MET', 694], ['A', 'THR', 695], ['A', 'PHE', 698], ['A', 'SER', 1183], ['A', 'MET', 1184], ['A', 'ALA', 1185], ['A', 'ARG', 1380], ['A', 'PHE', 1381], ['A', 'VAL', 1391], ['A', 'TRP', 1392], ['B', 'PRO', 28], ['B', 'PHE', 30], ['B', 'CYS', 31], ['B', 'LYS', 32], ['B', 'SER', 33], ['B', 'CYS', 34], ['B', 'TRP', 35], ['B', 'PHE', 36], ['B', 'ASN', 52], ['B', 'CYS', 53], ['B', 'LEU', 56], ['B', 'LEU', 57], ['B', 'GLY', 59], ['B', 'VAL', 60], ['B', 'PRO', 65]]
2 | [['A', 'HIS', 1348], ['B', 'ASN', 38]]
Calculation of interface was successful
Interactions in clusters in my_msa_consurf_7ckl.pdb['A', 'B']
---
Cluster | Interactions
1 | [[['A', 'LYS', 263], ['B', 'PHE', 36]], [['A', 'ASP', 605], ['B', 'VAL', 60]], [['A', 'ASN', 607], ['B', 'LEU', 56]], [['A', 'ASN', 607], ['B', 'VAL', 60]], [['A', 'ASN', 607], ['B', 'GLY', 59]], [['A', 'ASN', 607], ['B', 'LEU', 57]], [['A', 'GLU', 608], ['B', 'LEU', 56]], [['A', 'VAL', 650], ['B', 'PHE', 36]], [['A', 'VAL', 650], ['B', 'TRP', 35]], [['A', 'SER', 651], ['B', 'PHE', 36]], [['A', 'VAL', 690], ['B', 'LEU', 56]], [['A', 'LYS', 691], ['B', 'ASN', 52]], [['A', 'LYS', 691], ['B', 'CYS', 34]], [['A', 'LYS', 691], ['B', 'LEU', 56]], [['A', 'LYS', 691], ['B', 'CYS', 53]], [['A', 'SER', 692], ['B', 'SER', 33]], [['A', 'SER', 692], ['B', 'LEU', 56]], [['A', 'SER', 692], ['B', 'LEU', 57]], [['A', 'SER', 692], ['B', 'CYS', 34]], [['A', 'SER', 692], ['B', 'CYS', 53]], [['A', 'MET', 693], ['B', 'SER', 33]], [['A', 'MET', 693], ['B', 'PRO', 65]], [['A', 'MET', 693], ['B', 'LEU', 57]], [['A', 'MET', 693], ['B', 'CYS', 34]], [['A', 'MET', 694], ['B', 'TRP', 35]], [['A', 'MET', 694], ['B', 'SER', 33]], [['A', 'MET', 694], ['B', 'CYS', 34]], [['A', 'THR', 695], ['B', 'TRP', 35]], [['A', 'THR', 695], ['B', 'LYS', 32]], [['A', 'THR', 695], ['B', 'SER', 33]], [['A', 'PHE', 698], ['B', 'TRP', 35]], [['A', 'SER', 1183], ['B', 'PRO', 28]], [['A', 'MET', 1184], ['B', 'PRO', 28]], [['A', 'ALA', 1185], ['B', 'PHE', 30]], [['A', 'ALA', 1185], ['B', 'PRO', 28]], [['A', 'ARG', 1380], ['B', 'PHE', 30]], [['A', 'PHE', 1381], ['B', 'PHE', 30]], [['A', 'PHE', 1381], ['B', 'TRP', 35]], [['A', 'VAL', 1391], ['B', 'TRP', 35]], [['A', 'TRP', 1392], ['B', 'LYS', 32]], [['A', 'TRP', 1392], ['B', 'TRP', 35]], [['A', 'TRP', 1392], ['B', 'CYS', 31]]]
2 | [[['A', 'HIS', 1348], ['B', 'ASN', 38]]]
Mean pLDDT of clusters in my_msa_consurf_7ckl.pdb['A', 'B']
---
Cluster | Mean pLDDT
1 | 8.23
2 | 9.0
Drag select of 1 residues
> select #11/A:1710
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #11/A:1710
5 atoms, 4 bonds, 1 residue, 1 model selected
> select #11/A:1710
5 atoms, 4 bonds, 1 residue, 1 model selected
> select subtract #11/A:1710
Nothing selected
Drag select of 34 atoms, 279 residues, 59 pseudobonds, 25 bonds
> select subtract #11/A:1430
2255 atoms, 25 bonds, 59 pseudobonds, 280 residues, 3 models selected
> select subtract #11/A:1431
2250 atoms, 25 bonds, 59 pseudobonds, 279 residues, 3 models selected
> select subtract #11/A:1432
2242 atoms, 25 bonds, 59 pseudobonds, 278 residues, 3 models selected
> select subtract #11/A:1433
2238 atoms, 25 bonds, 59 pseudobonds, 277 residues, 3 models selected
> select subtract #11/A:1469
2227 atoms, 25 bonds, 59 pseudobonds, 276 residues, 3 models selected
> select subtract #11/A:1467
2219 atoms, 25 bonds, 59 pseudobonds, 275 residues, 3 models selected
> select subtract #11/A:1466
2212 atoms, 25 bonds, 59 pseudobonds, 274 residues, 3 models selected
> select subtract #11/A:1468
2205 atoms, 25 bonds, 59 pseudobonds, 273 residues, 3 models selected
> select subtract #11/A:1440
2197 atoms, 25 bonds, 59 pseudobonds, 272 residues, 3 models selected
> select subtract #11/A:1439
2191 atoms, 25 bonds, 59 pseudobonds, 271 residues, 3 models selected
> select subtract #11/A:1441
2183 atoms, 25 bonds, 59 pseudobonds, 270 residues, 3 models selected
> select subtract #11/A:1438
2175 atoms, 25 bonds, 59 pseudobonds, 269 residues, 3 models selected
> select subtract #11/A:1437
2165 atoms, 25 bonds, 59 pseudobonds, 268 residues, 3 models selected
> select subtract #11/A:1436
2158 atoms, 25 bonds, 59 pseudobonds, 267 residues, 3 models selected
> select subtract #11/A:1435
2151 atoms, 25 bonds, 59 pseudobonds, 266 residues, 3 models selected
> select subtract #11/A:1401
2142 atoms, 25 bonds, 59 pseudobonds, 265 residues, 3 models selected
> select add #11/A:1401
2151 atoms, 33 bonds, 59 pseudobonds, 266 residues, 3 models selected
> select subtract #11/A:1401
2142 atoms, 25 bonds, 59 pseudobonds, 265 residues, 3 models selected
> select subtract #11/A:1400
2135 atoms, 25 bonds, 59 pseudobonds, 264 residues, 3 models selected
> select subtract #11/A:1399
2127 atoms, 25 bonds, 59 pseudobonds, 263 residues, 3 models selected
> select subtract #11/A:1398
2119 atoms, 25 bonds, 59 pseudobonds, 262 residues, 3 models selected
> select subtract #11/A:1434
2112 atoms, 25 bonds, 59 pseudobonds, 261 residues, 3 models selected
Drag select of 16 atoms, 39 residues, 5 pseudobonds, 12 bonds
> select subtract #11/B:42
2042 atoms, 17 bonds, 54 pseudobonds, 253 residues, 3 models selected
> select subtract #11/B:71
2034 atoms, 17 bonds, 54 pseudobonds, 252 residues, 3 models selected
> select subtract #11/B:72
2027 atoms, 17 bonds, 54 pseudobonds, 251 residues, 3 models selected
> select subtract #11/B:73
2020 atoms, 17 bonds, 54 pseudobonds, 250 residues, 3 models selected
> select subtract #11/B:43
2011 atoms, 17 bonds, 54 pseudobonds, 249 residues, 3 models selected
> select subtract #11/B:41
2003 atoms, 17 bonds, 54 pseudobonds, 248 residues, 3 models selected
> select subtract #11/B:40
1999 atoms, 17 bonds, 54 pseudobonds, 247 residues, 3 models selected
> select subtract #11/B:62
1993 atoms, 17 bonds, 54 pseudobonds, 246 residues, 3 models selected
> select subtract #11/B:47
1990 atoms, 15 bonds, 54 pseudobonds, 245 residues, 3 models selected
> select subtract #11/B:58
1982 atoms, 15 bonds, 54 pseudobonds, 244 residues, 3 models selected
> select subtract #11/B:59
1978 atoms, 15 bonds, 54 pseudobonds, 243 residues, 3 models selected
> select subtract #11/B:67
1975 atoms, 13 bonds, 54 pseudobonds, 242 residues, 3 models selected
> select subtract #11/B:66
1967 atoms, 13 bonds, 54 pseudobonds, 241 residues, 3 models selected
> select subtract #11/B:65
1960 atoms, 13 bonds, 54 pseudobonds, 240 residues, 3 models selected
> select subtract #11/B:68
1951 atoms, 13 bonds, 54 pseudobonds, 239 residues, 3 models selected
> select subtract #11/B:54
1943 atoms, 13 bonds, 54 pseudobonds, 238 residues, 3 models selected
> select add #11/B:49
1951 atoms, 20 bonds, 54 pseudobonds, 239 residues, 3 models selected
> select subtract #11/B:49
1943 atoms, 13 bonds, 54 pseudobonds, 238 residues, 3 models selected
> select add #11/B:54
1951 atoms, 20 bonds, 54 pseudobonds, 239 residues, 3 models selected
> select subtract #11/B:55
1944 atoms, 20 bonds, 54 pseudobonds, 238 residues, 3 models selected
> select subtract #11/B:54
1936 atoms, 13 bonds, 54 pseudobonds, 237 residues, 3 models selected
> select subtract #11/B:53
1934 atoms, 12 bonds, 50 pseudobonds, 236 residues, 3 models selected
> select subtract #11/B:56
1926 atoms, 12 bonds, 50 pseudobonds, 235 residues, 3 models selected
> select subtract #11/B:52
1918 atoms, 12 bonds, 50 pseudobonds, 234 residues, 3 models selected
> select subtract #11/B:50
1916 atoms, 10 bonds, 50 pseudobonds, 233 residues, 3 models selected
> select subtract #11/B:51
1908 atoms, 10 bonds, 50 pseudobonds, 232 residues, 3 models selected
> select subtract #11/B:36
1897 atoms, 10 bonds, 50 pseudobonds, 231 residues, 3 models selected
> select subtract #11/B:35
1883 atoms, 10 bonds, 50 pseudobonds, 230 residues, 3 models selected
> select subtract #11/B:33
1880 atoms, 8 bonds, 19 pseudobonds, 229 residues, 3 models selected
> select subtract #11/A:1183
1874 atoms, 8 bonds, 18 pseudobonds, 228 residues, 3 models selected
> select add #11/A:1183
1880 atoms, 13 bonds, 18 pseudobonds, 229 residues, 3 models selected
> select subtract #11/B:34
1877 atoms, 11 bonds, 1 pseudobond, 228 residues, 2 models selected
> select subtract #11/B:32
1868 atoms, 11 bonds, 1 pseudobond, 227 residues, 2 models selected
> select subtract #11/B:31
1865 atoms, 9 bonds, 226 residues, 1 model selected
> select subtract #11/B:101@ZN
1864 atoms, 9 bonds, 225 residues, 1 model selected
> select clear
> select #11/A:1392
14 atoms, 15 bonds, 1 residue, 1 model selected
> select #11/A:1391
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #11/A:1392
21 atoms, 21 bonds, 2 residues, 1 model selected
> select add #11/A:1381
32 atoms, 32 bonds, 3 residues, 1 model selected
> select add #11/A:1380
43 atoms, 42 bonds, 4 residues, 1 model selected
> select add #11/A:1183
49 atoms, 47 bonds, 5 residues, 1 model selected
> select add #11/A:1184
57 atoms, 54 bonds, 6 residues, 1 model selected
> select add #11/A:1185
62 atoms, 58 bonds, 7 residues, 1 model selected
> select add #11/A:650
69 atoms, 64 bonds, 8 residues, 1 model selected
> select add #11/A:651
75 atoms, 69 bonds, 9 residues, 1 model selected
> select add #11/A:698
86 atoms, 80 bonds, 10 residues, 1 model selected
> select add #11/A:695
93 atoms, 86 bonds, 11 residues, 1 model selected
> select add #11/A:694
101 atoms, 93 bonds, 12 residues, 1 model selected
> select add #11/A:693
109 atoms, 100 bonds, 13 residues, 1 model selected
> select add #11/A:692
115 atoms, 105 bonds, 14 residues, 1 model selected
> select add #11/A:691
124 atoms, 113 bonds, 15 residues, 1 model selected
> select add #11/A:607
132 atoms, 120 bonds, 16 residues, 1 model selected
> select add #11/A:608
141 atoms, 128 bonds, 17 residues, 1 model selected
> select add #11/A:605
149 atoms, 135 bonds, 18 residues, 1 model selected
> select add #11/A:263
158 atoms, 143 bonds, 19 residues, 1 model selected
> select add #11/B:38
166 atoms, 150 bonds, 20 residues, 1 model selected
> select add #11/A:1348
176 atoms, 160 bonds, 21 residues, 1 model selected
> select add #11/B:28
183 atoms, 167 bonds, 22 residues, 1 model selected
> select add #11/B:52
191 atoms, 174 bonds, 23 residues, 1 model selected
> select add #11/B:53
197 atoms, 179 bonds, 24 residues, 1 model selected
> select add #11/B:56
205 atoms, 186 bonds, 25 residues, 1 model selected
> select add #11/B:57
213 atoms, 193 bonds, 26 residues, 1 model selected
> select add #11/B:59
217 atoms, 196 bonds, 27 residues, 1 model selected
> select add #11/B:60
224 atoms, 202 bonds, 28 residues, 1 model selected
> select add #11/B:65
231 atoms, 209 bonds, 29 residues, 1 model selected
> select add #11/B:33
237 atoms, 214 bonds, 30 residues, 1 model selected
> select add #11/B:32
246 atoms, 222 bonds, 31 residues, 1 model selected
> select add #11/B:31
252 atoms, 227 bonds, 32 residues, 1 model selected
> select add #11/B:30
263 atoms, 238 bonds, 33 residues, 1 model selected
> select add #11/B:34
269 atoms, 243 bonds, 34 residues, 1 model selected
> select add #11/B:35
283 atoms, 258 bonds, 35 residues, 1 model selected
> select add #11/B:36
294 atoms, 269 bonds, 36 residues, 1 model selected
> ui tool show "Render/Select by Attribute"
> color byattribute a:bfactor #!11 target absc palette
> 0,#0c7d82:4.5,white:9,#a02760
11521 atoms, 1467 residues, atom bfactor range 0 to 9
> undo
> color byattribute a:bfactor #!11 & sel target absc palette
> 0,#0c7d82:4.5,white:9,#a02760
294 atoms, 36 residues, atom bfactor range 4 to 9
> select add #11/A:690
301 atoms, 275 bonds, 37 residues, 1 model selected
> color byattribute a:bfactor #!11 & sel target absc palette
> 0,#0c7d82:4.5,white:9,#a02760
301 atoms, 37 residues, atom bfactor range 4 to 9
> select clear
Drag select of 28 atoms, 242 residues, 58 pseudobonds, 20 bonds
Drag select of 21 residues
> select subtract #11/A:240
1920 atoms, 20 bonds, 58 pseudobonds, 237 residues, 3 models selected
> select subtract #11/A:770
1914 atoms, 20 bonds, 58 pseudobonds, 236 residues, 3 models selected
> select subtract #11/A:769
1907 atoms, 20 bonds, 58 pseudobonds, 235 residues, 3 models selected
> select subtract #11/A:243
1898 atoms, 20 bonds, 58 pseudobonds, 234 residues, 3 models selected
> select subtract #11/A:774
1891 atoms, 20 bonds, 58 pseudobonds, 233 residues, 3 models selected
> select subtract #11/A:241
1882 atoms, 20 bonds, 58 pseudobonds, 232 residues, 3 models selected
> select subtract #11/A:768
1876 atoms, 20 bonds, 58 pseudobonds, 231 residues, 3 models selected
> select subtract #11/A:775
1870 atoms, 20 bonds, 58 pseudobonds, 230 residues, 3 models selected
> select subtract #11/A:244
1863 atoms, 20 bonds, 58 pseudobonds, 229 residues, 3 models selected
Drag select of 6 residues
> select subtract #11/B:66
1822 atoms, 20 bonds, 58 pseudobonds, 223 residues, 3 models selected
> select subtract #11/B:67
1819 atoms, 18 bonds, 57 pseudobonds, 222 residues, 3 models selected
> select subtract #11/B:68
1810 atoms, 18 bonds, 57 pseudobonds, 221 residues, 3 models selected
> select subtract #11/B:69
1802 atoms, 18 bonds, 57 pseudobonds, 220 residues, 3 models selected
> select subtract #11/B:47
1795 atoms, 11 bonds, 56 pseudobonds, 219 residues, 3 models selected
> select subtract #11/B:70
1788 atoms, 11 bonds, 56 pseudobonds, 218 residues, 3 models selected
> select subtract #11/B:48
1776 atoms, 11 bonds, 56 pseudobonds, 217 residues, 3 models selected
> select subtract #11/B:63
1765 atoms, 11 bonds, 56 pseudobonds, 216 residues, 3 models selected
> select subtract #11/B:64
1762 atoms, 9 bonds, 55 pseudobonds, 215 residues, 3 models selected
> select subtract #11/B:65
1755 atoms, 9 bonds, 55 pseudobonds, 214 residues, 3 models selected
> select subtract #11/B:29
1746 atoms, 9 bonds, 55 pseudobonds, 213 residues, 3 models selected
> select subtract #11/B:30
1735 atoms, 9 bonds, 55 pseudobonds, 212 residues, 3 models selected
> select subtract #11/B:31
1732 atoms, 7 bonds, 54 pseudobonds, 211 residues, 3 models selected
> select subtract #11/B:37
1723 atoms, 7 bonds, 54 pseudobonds, 210 residues, 3 models selected
> select subtract #11/B:60
1716 atoms, 7 bonds, 54 pseudobonds, 209 residues, 3 models selected
> select subtract #11/B:57
1708 atoms, 7 bonds, 54 pseudobonds, 208 residues, 3 models selected
> select subtract #11/B:53
1707 atoms, 6 bonds, 50 pseudobonds, 207 residues, 3 models selected
> select subtract #11/B:61
1701 atoms, 6 bonds, 50 pseudobonds, 206 residues, 3 models selected
> select subtract #11/B:101@ZN
1700 atoms, 6 bonds, 49 pseudobonds, 205 residues, 3 models selected
> select subtract #11/B:102@ZN
1699 atoms, 6 bonds, 48 pseudobonds, 204 residues, 2 models selected
> select subtract #11/B:33
1696 atoms, 4 bonds, 17 pseudobonds, 203 residues, 2 models selected
> select subtract #11/B:32
1687 atoms, 4 bonds, 17 pseudobonds, 202 residues, 2 models selected
> select subtract #11/B:35
1673 atoms, 4 bonds, 17 pseudobonds, 201 residues, 2 models selected
> select subtract #11/B:36
1662 atoms, 4 bonds, 17 pseudobonds, 200 residues, 2 models selected
> select subtract #11/B:34
1659 atoms, 2 bonds, 1 pseudobond, 199 residues, 2 models selected
> show sel surfaces
> transparency (#!11 & sel) 60
> select clear
> select #11/A:607@OD1
1 atom, 1 residue, 1 model selected
> hide sel surfaces
> show sel surfaces
> select clear
> hide #!11 surfaces
> select #11/A:607
8 atoms, 7 bonds, 1 residue, 1 model selected
> select #11/A:650
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #11/A:607
15 atoms, 13 bonds, 2 residues, 2 models selected
> select add #11/A:693
23 atoms, 20 bonds, 3 residues, 2 models selected
> select add #11/A:690
30 atoms, 26 bonds, 4 residues, 2 models selected
> select add #11/A:263
39 atoms, 34 bonds, 5 residues, 2 models selected
> select add #11/A:691
48 atoms, 42 bonds, 6 residues, 2 models selected
> select add #11/A:692
54 atoms, 47 bonds, 7 residues, 2 models selected
> select add #11/A:695
61 atoms, 53 bonds, 8 residues, 2 models selected
> select add #11/A:694
69 atoms, 60 bonds, 9 residues, 2 models selected
> select add #11/A:698
80 atoms, 71 bonds, 10 residues, 2 models selected
Drag select of 3 pseudobonds
> select add #11/A:607
8 atoms, 7 bonds, 3 pseudobonds, 1 residue, 2 models selected
> select add #11/A:693
16 atoms, 14 bonds, 3 pseudobonds, 2 residues, 3 models selected
> select add #11/A:694
24 atoms, 21 bonds, 3 pseudobonds, 3 residues, 3 models selected
> select add #11/A:690
31 atoms, 27 bonds, 3 pseudobonds, 4 residues, 3 models selected
> select add #11/A:691
40 atoms, 35 bonds, 3 pseudobonds, 5 residues, 3 models selected
> select add #11/A:692
46 atoms, 40 bonds, 3 pseudobonds, 6 residues, 3 models selected
> select add #11/A:698
57 atoms, 51 bonds, 3 pseudobonds, 7 residues, 3 models selected
> select add #11/A:695
64 atoms, 57 bonds, 3 pseudobonds, 8 residues, 3 models selected
> select add #11/A:1348
74 atoms, 67 bonds, 3 pseudobonds, 9 residues, 3 models selected
> select add #11/A:263
83 atoms, 75 bonds, 3 pseudobonds, 10 residues, 3 models selected
> select add #11/A:650
90 atoms, 81 bonds, 3 pseudobonds, 11 residues, 3 models selected
> select add #11/A:1380
101 atoms, 91 bonds, 3 pseudobonds, 12 residues, 3 models selected
> select add #11/A:1381
112 atoms, 102 bonds, 3 pseudobonds, 13 residues, 3 models selected
> select add #11/A:1183
118 atoms, 107 bonds, 3 pseudobonds, 14 residues, 3 models selected
> select add #11/B:28
125 atoms, 114 bonds, 3 pseudobonds, 15 residues, 3 models selected
> select add #11/A:1185
130 atoms, 118 bonds, 3 pseudobonds, 16 residues, 3 models selected
> select add #11/A:1391
137 atoms, 124 bonds, 3 pseudobonds, 17 residues, 3 models selected
> select add #11/A:1392
151 atoms, 139 bonds, 3 pseudobonds, 18 residues, 3 models selected
> show sel surfaces
> ui tool show "Render/Select by Attribute"
> color byattribute a:bfactor #!11 & sel target absc palette
> 0,#0c7d82:4.5,white:9,#a02760
151 atoms, 18 residues, 2 surfaces, atom bfactor range 6 to 9
> select add #11/B:29
160 atoms, 147 bonds, 3 pseudobonds, 19 residues, 4 models selected
> hide sel surfaces
> select subtract #11/B:29
151 atoms, 139 bonds, 3 pseudobonds, 18 residues, 4 models selected
> select subtract #11/B:28
144 atoms, 132 bonds, 3 pseudobonds, 17 residues, 4 models selected
> show sel surfaces
> color byattribute a:bfactor #!11 & sel target absc palette
> 0,#0c7d82:4.5,white:9,#a02760
144 atoms, 17 residues, 1 surfaces, atom bfactor range 6 to 9
> color byattribute a:bfactor #!11 & sel target absc palette
> 0,#0c7d82:4.5,white:9,#a02760
144 atoms, 17 residues, 1 surfaces, atom bfactor range 6 to 9
> color byattribute a:bfactor #!11 & sel target absc palette
> 0,#0c7d82:4.5,white:9,#a02760
144 atoms, 17 residues, 1 surfaces, atom bfactor range 6 to 9
> hide sel surfaces
> select clear
> show #!11 surfaces
> hide #!11 surfaces
> select #11/A
11138 atoms, 11335 bonds, 22 pseudobonds, 1416 residues, 3 models selected
> show sel surfaces
> transparency (#!11 & sel) 60
> select clear
> set bgColor black
> set bgColor transparent
> select add #11/B:25
10 atoms, 10 bonds, 1 residue, 1 model selected
> select add #11/B:26
18 atoms, 17 bonds, 2 residues, 2 models selected
> select add #11/B:27
22 atoms, 20 bonds, 3 residues, 2 models selected
> select add #11/B:29
31 atoms, 28 bonds, 4 residues, 2 models selected
> select add #11/A:688@O
32 atoms, 28 bonds, 5 residues, 2 models selected
> select subtract #11/A:688@O
31 atoms, 28 bonds, 4 residues, 3 models selected
> select add #11/B:37
40 atoms, 36 bonds, 5 residues, 2 models selected
> select add #11/B:39
49 atoms, 44 bonds, 6 residues, 2 models selected
> select add #11/B:40
53 atoms, 47 bonds, 7 residues, 2 models selected
> select add #11/B:41
61 atoms, 54 bonds, 8 residues, 2 models selected
> select add #11/B:42
68 atoms, 60 bonds, 9 residues, 2 models selected
> select add #11/B:43
77 atoms, 68 bonds, 10 residues, 2 models selected
> select add #11/B:48
89 atoms, 80 bonds, 11 residues, 2 models selected
> select add #11/B:49
97 atoms, 87 bonds, 12 residues, 2 models selected
> select add #11/B:50
103 atoms, 92 bonds, 13 residues, 2 models selected
> select add #11/B:47
113 atoms, 102 bonds, 14 residues, 2 models selected
> select add #11/B:46
121 atoms, 109 bonds, 15 residues, 2 models selected
> select add #11/B:45
129 atoms, 116 bonds, 16 residues, 2 models selected
> select add #11/B:44
135 atoms, 121 bonds, 17 residues, 2 models selected
> select add #11/B:51
143 atoms, 128 bonds, 18 residues, 2 models selected
> select add #11/B:54
151 atoms, 135 bonds, 19 residues, 2 models selected
> select add #11/B:55
158 atoms, 141 bonds, 20 residues, 2 models selected
> select add #11/B:58
166 atoms, 148 bonds, 21 residues, 2 models selected
> select add #11/B:64
172 atoms, 153 bonds, 22 residues, 2 models selected
> select add #11/B:63
183 atoms, 163 bonds, 23 residues, 2 models selected
> select add #11/B:62
189 atoms, 168 bonds, 24 residues, 2 models selected
> select add #11/B:61
195 atoms, 173 bonds, 25 residues, 2 models selected
> select add #11/B:66
203 atoms, 180 bonds, 26 residues, 2 models selected
> select add #11/B:67
209 atoms, 185 bonds, 27 residues, 2 models selected
> select add #11/B:68
218 atoms, 193 bonds, 28 residues, 2 models selected
> select add #11/B:69
226 atoms, 200 bonds, 29 residues, 2 models selected
> select add #11/B:70
233 atoms, 207 bonds, 30 residues, 2 models selected
> select add #11/B:71
241 atoms, 214 bonds, 31 residues, 2 models selected
> select add #11/B:72
248 atoms, 221 bonds, 32 residues, 2 models selected
> select add #11/B:73
255 atoms, 227 bonds, 33 residues, 2 models selected
> color (#!11 & sel) #a9a9a9ff
> color (#!11 & sel) #c0c0c0ff
> set bgColor white
> set bgColor #ffffff00
> color (#!11 & sel) #00fdffff
> color (#!11 & sel) #73fcd6ff
> color (#!11 & sel) #fffc79ff
> color (#!11 & sel) #ff7e79ff
> color (#!11 & sel) #424242ff
> color (#!11 & sel) #797979ff
> color (#!11 & sel) #d6d6d6ff
> color (#!11 & sel) #c0c0c0ff
> select clear
> select #11 /A :263 #11 /A :605 #11 /A :607 #11 /A :608 #11 /A :650 #11 /A
> :651 #11 /A :690 #11 /A :691 #11 /A :692 #11 /A :693 #11 /A :694 #11 /A :695
> #11 /A :698 #11 /A :1183 #11 /A :1184 #11 /A :1185 #11 /A :1380 #11 /A :1381
> #11 /A :1391 #11 /A :1392 #11 /B :28 #11 /B :30 #11 /B :31 #11 /B :32 #11 /B
> :33 #11 /B :34 #11 /B :35 #11 /B :36 #11 /B :52 #11 /B :53 #11 /B :56 #11 /B
> :57 #11 /B :59 #11 /B :60 #11 /B :65
283 atoms, 278 bonds, 292 pseudobonds, 35 residues, 2 models selected
> select #11 /A :263 #11 /A :605 #11 /A :607 #11 /A :608 #11 /A :650 #11 /A
> :651 #11 /A :690 #11 /A :691 #11 /A :692 #11 /A :693 #11 /A :694 #11 /A :695
> #11 /A :698 #11 /A :1183 #11 /A :1184 #11 /A :1185 #11 /A :1380 #11 /A :1381
> #11 /A :1391 #11 /A :1392 #11 /B :28 #11 /B :30 #11 /B :31 #11 /B :32 #11 /B
> :33 #11 /B :34 #11 /B :35 #11 /B :36 #11 /B :52 #11 /B :53 #11 /B :56 #11 /B
> :57 #11 /B :59 #11 /B :60 #11 /B :65
283 atoms, 278 bonds, 292 pseudobonds, 35 residues, 2 models selected
> show sel atoms
Cell requested for row 0 is out of bounds for table with 0 rows! Resizing
table model.
> select #11 /A :1348 #11 /B :38
18 atoms, 17 bonds, 1 pseudobond, 2 residues, 2 models selected
Cell requested for row 0 is out of bounds for table with 0 rows! Resizing
table model.
> show sel atoms
Cell requested for row 0 is out of bounds for table with 0 rows! Resizing
table model.
> select #11 /A :263 #11 /A :605 #11 /A :607 #11 /A :608 #11 /A :650 #11 /A
> :651 #11 /A :690 #11 /A :691 #11 /A :692 #11 /A :693 #11 /A :694 #11 /A :695
> #11 /A :698 #11 /A :1183 #11 /A :1184 #11 /A :1185 #11 /A :1380 #11 /A :1381
> #11 /A :1391 #11 /A :1392 #11 /B :28 #11 /B :30 #11 /B :31 #11 /B :32 #11 /B
> :33 #11 /B :34 #11 /B :35 #11 /B :36 #11 /B :52 #11 /B :53 #11 /B :56 #11 /B
> :57 #11 /B :59 #11 /B :60 #11 /B :65
283 atoms, 278 bonds, 292 pseudobonds, 35 residues, 2 models selected
Cell requested for row 0 is out of bounds for table with 0 rows! Resizing
table model.
> select clear
> hide #!11 surfaces
> select #11 /A :263 #11 /A :605 #11 /A :607 #11 /A :608 #11 /A :650 #11 /A
> :651 #11 /A :690 #11 /A :691 #11 /A :692 #11 /A :693 #11 /A :694 #11 /A :695
> #11 /A :698 #11 /A :1183 #11 /A :1184 #11 /A :1185 #11 /A :1380 #11 /A :1381
> #11 /A :1391 #11 /A :1392 #11 /B :28 #11 /B :30 #11 /B :31 #11 /B :32 #11 /B
> :33 #11 /B :34 #11 /B :35 #11 /B :36 #11 /B :52 #11 /B :53 #11 /B :56 #11 /B
> :57 #11 /B :59 #11 /B :60 #11 /B :65
283 atoms, 278 bonds, 292 pseudobonds, 35 residues, 2 models selected
> select #11/A:1348
10 atoms, 10 bonds, 1 residue, 1 model selected
> select #11 /A :263 #11 /A :605 #11 /A :607 #11 /A :608 #11 /A :650 #11 /A
> :651 #11 /A :690 #11 /A :691 #11 /A :692 #11 /A :693 #11 /A :694 #11 /A :695
> #11 /A :698 #11 /A :1183 #11 /A :1184 #11 /A :1185 #11 /A :1380 #11 /A :1381
> #11 /A :1391 #11 /A :1392 #11 /B :28 #11 /B :30 #11 /B :31 #11 /B :32 #11 /B
> :33 #11 /B :34 #11 /B :35 #11 /B :36 #11 /B :52 #11 /B :53 #11 /B :56 #11 /B
> :57 #11 /B :59 #11 /B :60 #11 /B :65
283 atoms, 278 bonds, 292 pseudobonds, 35 residues, 2 models selected
> select add #11/A:1348
293 atoms, 288 bonds, 292 pseudobonds, 36 residues, 4 models selected
> select add #11/B:38
301 atoms, 295 bonds, 292 pseudobonds, 37 residues, 4 models selected
> ui tool show Contacts
> contacts sel intraRes true ignoreHiddenModels true select true color #fffb00
> reveal true log true
Allowed overlap: -0.4
H-bond overlap reduction: 0.4
Ignore contacts between atoms separated by 4 bonds or less
Detect intra-residue contacts: True
Detect intra-molecule contacts: True
231 contacts
atom1 atom2 overlap distance
my_msa_consurf_7ckl.pdb #11/B PHE 36 CZ my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ 0.802 2.598
my_msa_consurf_7ckl.pdb #11/B PHE 36 CE2 my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ 0.709 2.691
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 0.691 2.709
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 my_msa_consurf_7ckl.pdb #11/B TRP 35 CD1 0.394 3.126
my_msa_consurf_7ckl.pdb #11/A SER 692 O my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 0.373 2.287
my_msa_consurf_7ckl.pdb #11/A SER 651 CB my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG1 0.352 3.408
my_msa_consurf_7ckl.pdb #11/B CYS 53 SG my_msa_consurf_7ckl.pdb #11/B SER 33 OG 0.341 2.489
my_msa_consurf_7ckl.pdb #11/B LYS 32 CD my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 0.304 3.216
my_msa_consurf_7ckl.pdb #11/B CYS 53 CB my_msa_consurf_7ckl.pdb #11/B CYS 50 SG 0.233 3.417
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 0.233 3.287
my_msa_consurf_7ckl.pdb #11/B PHE 30 CZ my_msa_consurf_7ckl.pdb #11/A ARG 1380 NH2 0.224 3.176
my_msa_consurf_7ckl.pdb #11/A MET 1184 CB my_msa_consurf_7ckl.pdb #11/A HIS 1186 CD2 0.216 3.424
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A ARG 697 NH2 0.206 3.314
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ2 my_msa_consurf_7ckl.pdb #11/B LYS 32 CG 0.192 3.448
my_msa_consurf_7ckl.pdb #11/A SER 651 O my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 0.186 3.114
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 CB 0.174 3.586
my_msa_consurf_7ckl.pdb #11/A SER 692 O my_msa_consurf_7ckl.pdb #11/A MET 693 CG 0.151 3.149
my_msa_consurf_7ckl.pdb #11/B ASN 52 O my_msa_consurf_7ckl.pdb #11/B THR 55 CG2 0.144 3.156
my_msa_consurf_7ckl.pdb #11/B SER 33 CB my_msa_consurf_7ckl.pdb #11/B CYS 53 SG 0.144 3.506
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ2 0.140 3.500
my_msa_consurf_7ckl.pdb #11/A VAL 650 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 0.134 3.506
my_msa_consurf_7ckl.pdb #11/A PHE 1381 CE1 my_msa_consurf_7ckl.pdb #11/B TRP 35 O 0.134 3.046
my_msa_consurf_7ckl.pdb #11/A MET 693 SD my_msa_consurf_7ckl.pdb #11/A ASN 696 ND2 0.125 2.885
my_msa_consurf_7ckl.pdb #11/B CYS 53 CB my_msa_consurf_7ckl.pdb #11/B SER 33 OG 0.123 3.217
my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ my_msa_consurf_7ckl.pdb #11/B PHE 36 CE1 0.105 3.295
my_msa_consurf_7ckl.pdb #11/A LYS 263 CB my_msa_consurf_7ckl.pdb #11/A TYR 649 OH 0.101 3.239
my_msa_consurf_7ckl.pdb #11/B PHE 36 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 34 O 0.101 3.079
my_msa_consurf_7ckl.pdb #11/A ASP 605 OD1 my_msa_consurf_7ckl.pdb #11/B VAL 60 CG1 0.099 3.201
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG1 my_msa_consurf_7ckl.pdb #11/A SER 687 OG 0.095 3.245
my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 698 CE2 0.088 3.552
my_msa_consurf_7ckl.pdb #11/A MET 693 CB my_msa_consurf_7ckl.pdb #11/A ASN 696 ND2 0.077 3.443
my_msa_consurf_7ckl.pdb #11/A VAL 650 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ3 0.075 3.565
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 0.074 3.566
my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 my_msa_consurf_7ckl.pdb #11/A ASN 607 ND2 0.071 3.449
my_msa_consurf_7ckl.pdb #11/B PHE 30 CD2 my_msa_consurf_7ckl.pdb #11/B GLN 29 C 0.063 3.307
my_msa_consurf_7ckl.pdb #11/B ASN 38 N my_msa_consurf_7ckl.pdb #11/B GLU 37 CD 0.063 3.457
my_msa_consurf_7ckl.pdb #11/B ASN 52 O my_msa_consurf_7ckl.pdb #11/B LEU 56 CB 0.062 3.238
my_msa_consurf_7ckl.pdb #11/B LYS 32 CD my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 0.061 3.579
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 0.054 3.346
my_msa_consurf_7ckl.pdb #11/A LYS 263 CD my_msa_consurf_7ckl.pdb #11/A TYR 649 OH 0.053 3.287
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A SER 687 O 0.052 3.248
my_msa_consurf_7ckl.pdb #11/A ASP 605 O my_msa_consurf_7ckl.pdb #11/A MET 693 SD 0.048 3.142
my_msa_consurf_7ckl.pdb #11/B TRP 35 O my_msa_consurf_7ckl.pdb #11/A PHE 1381 CZ 0.034 3.146
my_msa_consurf_7ckl.pdb #11/B ASN 52 CA my_msa_consurf_7ckl.pdb #11/B THR 55 CG2 0.028 3.732
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B SER 33 OG 0.027 2.803
my_msa_consurf_7ckl.pdb #11/A PHE 1381 O my_msa_consurf_7ckl.pdb #11/A VAL 1391 O 0.023 2.817
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 0.022 3.348
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 0.016 3.624
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 53 CB 0.012 3.638
my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG1 0.010 3.750
my_msa_consurf_7ckl.pdb #11/A ASP 605 O my_msa_consurf_7ckl.pdb #11/A ASP 605 OD1 0.007 2.833
my_msa_consurf_7ckl.pdb #11/A MET 694 O my_msa_consurf_7ckl.pdb #11/A PHE 698 CB 0.001 3.299
my_msa_consurf_7ckl.pdb #11/A SER 692 OG my_msa_consurf_7ckl.pdb #11/B LEU 57 CD2 -0.004 3.344
my_msa_consurf_7ckl.pdb #11/A ASN 607 O my_msa_consurf_7ckl.pdb #11/A GLU 608 OE1 -0.009 2.849
my_msa_consurf_7ckl.pdb #11/A MET 694 SD my_msa_consurf_7ckl.pdb #11/A ARG 697 NH2 -0.010 3.020
my_msa_consurf_7ckl.pdb #11/A SER 1183 CB my_msa_consurf_7ckl.pdb #11/A LYS 1179 O -0.014 3.314
my_msa_consurf_7ckl.pdb #11/A ASN 607 CB my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 -0.015 3.775
my_msa_consurf_7ckl.pdb #11/A ASN 607 ND2 my_msa_consurf_7ckl.pdb #11/B LEU 56 O -0.018 2.678
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN -0.020 2.390
my_msa_consurf_7ckl.pdb #11/B CYS 53 SG my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN -0.022 2.392
my_msa_consurf_7ckl.pdb #11/B CYS 34 SG my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN -0.029 2.399
my_msa_consurf_7ckl.pdb #11/A PHE 698 O my_msa_consurf_7ckl.pdb #11/A LEU 702 CB -0.034 3.334
my_msa_consurf_7ckl.pdb #11/A MET 693 CG my_msa_consurf_7ckl.pdb #11/A ASN 696 ND2 -0.036 3.556
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A ARG 697 CZ -0.038 3.528
my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ my_msa_consurf_7ckl.pdb #11/B PHE 36 CD2 -0.039 3.439
my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 my_msa_consurf_7ckl.pdb #11/A ASN 607 CG -0.040 3.530
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 693 CA -0.050 3.350
my_msa_consurf_7ckl.pdb #11/B PHE 30 CD2 my_msa_consurf_7ckl.pdb #11/B GLN 29 O -0.056 3.236
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 -0.059 3.579
my_msa_consurf_7ckl.pdb #11/B LEU 56 CD2 my_msa_consurf_7ckl.pdb #11/A SER 692 CB -0.060 3.820
my_msa_consurf_7ckl.pdb #11/B LEU 57 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 53 O -0.061 3.361
my_msa_consurf_7ckl.pdb #11/A SER 692 C my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 -0.066 3.316
my_msa_consurf_7ckl.pdb #11/A ARG 1380 NH2 my_msa_consurf_7ckl.pdb #11/B PHE 30 CE2 -0.066 3.466
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 -0.076 3.596
my_msa_consurf_7ckl.pdb #11/B PHE 36 CD2 my_msa_consurf_7ckl.pdb #11/B TRP 35 C -0.078 3.448
my_msa_consurf_7ckl.pdb #11/A ASP 605 O my_msa_consurf_7ckl.pdb #11/A MET 693 CE -0.079 3.379
my_msa_consurf_7ckl.pdb #11/A VAL 650 CG1 my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG1 -0.079 3.839
my_msa_consurf_7ckl.pdb #11/B CYS 53 O my_msa_consurf_7ckl.pdb #11/B LEU 57 CB -0.080 3.380
my_msa_consurf_7ckl.pdb #11/A ASP 605 CG my_msa_consurf_7ckl.pdb #11/B VAL 60 CG1 -0.081 3.841
my_msa_consurf_7ckl.pdb #11/A SER 651 C my_msa_consurf_7ckl.pdb #11/A ASP 652 OD1 -0.083 3.113
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 CB -0.083 3.603
my_msa_consurf_7ckl.pdb #11/A ALA 1185 CB my_msa_consurf_7ckl.pdb #11/B PRO 28 CG -0.083 3.843
my_msa_consurf_7ckl.pdb #11/A ASN 607 O my_msa_consurf_7ckl.pdb #11/A ASN 607 OD1 -0.089 2.929
my_msa_consurf_7ckl.pdb #11/B PHE 30 CG my_msa_consurf_7ckl.pdb #11/B GLN 29 O -0.089 3.119
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 694 N -0.089 2.749
my_msa_consurf_7ckl.pdb #11/A LYS 263 O my_msa_consurf_7ckl.pdb #11/A LEU 267 CG -0.094 3.394
my_msa_consurf_7ckl.pdb #11/B PHE 30 CA my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 -0.096 3.856
my_msa_consurf_7ckl.pdb #11/B LYS 32 NZ my_msa_consurf_7ckl.pdb #11/B HIS 47 CB -0.096 3.616
my_msa_consurf_7ckl.pdb #11/A ARG 1380 CA my_msa_consurf_7ckl.pdb #11/A HIS 1186 O -0.102 3.402
my_msa_consurf_7ckl.pdb #11/A MET 1184 CE my_msa_consurf_7ckl.pdb #11/A HIS 1186 NE2 -0.108 3.628
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/A TYR 649 CE2 -0.109 3.749
my_msa_consurf_7ckl.pdb #11/A PHE 1381 CD2 my_msa_consurf_7ckl.pdb #11/A ARG 1380 O -0.117 3.297
my_msa_consurf_7ckl.pdb #11/A TRP 1392 O my_msa_consurf_7ckl.pdb #11/A TRP 1392 CD1 -0.121 3.301
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 50 N -0.123 3.133
my_msa_consurf_7ckl.pdb #11/A SER 651 O my_msa_consurf_7ckl.pdb #11/A ASP 652 OD1 -0.124 2.964
my_msa_consurf_7ckl.pdb #11/B CYS 31 CB my_msa_consurf_7ckl.pdb #11/B CYS 50 N -0.127 3.647
my_msa_consurf_7ckl.pdb #11/A GLU 608 CB my_msa_consurf_7ckl.pdb #11/A CYS 606 SG -0.133 3.783
my_msa_consurf_7ckl.pdb #11/A LYS 691 NZ my_msa_consurf_7ckl.pdb #11/A GLU 688 O -0.134 2.794
my_msa_consurf_7ckl.pdb #11/B CYS 34 SG my_msa_consurf_7ckl.pdb #11/B GLU 37 CB -0.134 3.784
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B LEU 49 CA -0.138 3.788
my_msa_consurf_7ckl.pdb #11/A PHE 698 CD2 my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 -0.138 3.778
my_msa_consurf_7ckl.pdb #11/A ALA 1185 CB my_msa_consurf_7ckl.pdb #11/B PRO 28 CB -0.139 3.899
my_msa_consurf_7ckl.pdb #11/A MET 693 CE my_msa_consurf_7ckl.pdb #11/A ASN 696 ND2 -0.140 3.660
my_msa_consurf_7ckl.pdb #11/B LEU 57 CD1 my_msa_consurf_7ckl.pdb #11/B PRO 65 CG -0.140 3.900
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B LEU 49 CD1 -0.143 3.793
my_msa_consurf_7ckl.pdb #11/B PHE 30 N my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 -0.146 3.666
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG1 my_msa_consurf_7ckl.pdb #11/A ASP 689 O -0.155 3.455
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 CA -0.156 3.676
my_msa_consurf_7ckl.pdb #11/A LYS 263 O my_msa_consurf_7ckl.pdb #11/A LEU 267 CB -0.162 3.462
my_msa_consurf_7ckl.pdb #11/A GLU 608 C my_msa_consurf_7ckl.pdb #11/A LEU 609 CD2 -0.171 3.661
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 CG -0.173 3.663
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B ILE 66 CD1 -0.174 3.934
my_msa_consurf_7ckl.pdb #11/A LYS 263 CB my_msa_consurf_7ckl.pdb #11/A TYR 649 CE1 -0.178 3.818
my_msa_consurf_7ckl.pdb #11/B CYS 31 O my_msa_consurf_7ckl.pdb #11/B TRP 35 CA -0.180 3.480
my_msa_consurf_7ckl.pdb #11/B PRO 65 CD my_msa_consurf_7ckl.pdb #11/B ARG 63 O -0.182 3.482
my_msa_consurf_7ckl.pdb #11/A PHE 698 CD1 my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 -0.182 3.822
my_msa_consurf_7ckl.pdb #11/B TRP 35 CD1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.183 3.703
my_msa_consurf_7ckl.pdb #11/B PRO 65 N my_msa_consurf_7ckl.pdb #11/B ARG 63 O -0.183 3.243
my_msa_consurf_7ckl.pdb #11/B LYS 32 CD my_msa_consurf_7ckl.pdb #11/B HIS 47 CG -0.187 3.677
my_msa_consurf_7ckl.pdb #11/B LEU 56 O my_msa_consurf_7ckl.pdb #11/B LEU 56 CD1 -0.189 3.489
my_msa_consurf_7ckl.pdb #11/A HIS 1348 N my_msa_consurf_7ckl.pdb #11/A LEU 1347 CD2 -0.191 3.711
my_msa_consurf_7ckl.pdb #11/A ARG 1380 CD my_msa_consurf_7ckl.pdb #11/A ASP 652 OD2 -0.192 3.492
my_msa_consurf_7ckl.pdb #11/A TRP 1392 NE1 my_msa_consurf_7ckl.pdb #11/B LYS 32 CE -0.196 3.716
my_msa_consurf_7ckl.pdb #11/A THR 695 O my_msa_consurf_7ckl.pdb #11/A LYS 699 CB -0.196 3.496
my_msa_consurf_7ckl.pdb #11/A PHE 698 O my_msa_consurf_7ckl.pdb #11/A PHE 698 CD1 -0.201 3.381
my_msa_consurf_7ckl.pdb #11/A SER 651 OG my_msa_consurf_7ckl.pdb #11/A ALA 648 C -0.201 3.271
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/B PHE 36 CZ -0.204 3.844
my_msa_consurf_7ckl.pdb #11/A SER 692 N my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 -0.213 3.493
my_msa_consurf_7ckl.pdb #11/A LYS 263 CB my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ -0.215 3.705
my_msa_consurf_7ckl.pdb #11/A PHE 698 O my_msa_consurf_7ckl.pdb #11/A LEU 702 N -0.215 2.875
my_msa_consurf_7ckl.pdb #11/B PRO 28 CB my_msa_consurf_7ckl.pdb #11/B PHE 30 CD2 -0.217 3.857
my_msa_consurf_7ckl.pdb #11/A ARG 1380 C my_msa_consurf_7ckl.pdb #11/A PHE 1381 CD2 -0.220 3.590
my_msa_consurf_7ckl.pdb #11/A MET 1184 CB my_msa_consurf_7ckl.pdb #11/A HIS 1186 NE2 -0.220 3.740
my_msa_consurf_7ckl.pdb #11/B CYS 53 O my_msa_consurf_7ckl.pdb #11/B LEU 57 N -0.221 2.881
my_msa_consurf_7ckl.pdb #11/B ASN 52 O my_msa_consurf_7ckl.pdb #11/B ASN 52 OD1 -0.222 3.062
my_msa_consurf_7ckl.pdb #11/A HIS 1348 CB my_msa_consurf_7ckl.pdb #11/A THR 1344 O -0.222 3.522
my_msa_consurf_7ckl.pdb #11/A PHE 698 CZ my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG2 -0.222 3.862
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 my_msa_consurf_7ckl.pdb #11/B LYS 32 CA -0.225 3.865
my_msa_consurf_7ckl.pdb #11/A MET 694 O my_msa_consurf_7ckl.pdb #11/A PHE 698 N -0.226 2.886
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/B PHE 36 CE2 -0.233 3.873
my_msa_consurf_7ckl.pdb #11/A GLU 608 O my_msa_consurf_7ckl.pdb #11/A GLU 611 OE2 -0.235 3.075
my_msa_consurf_7ckl.pdb #11/B ASN 38 O my_msa_consurf_7ckl.pdb #11/B LYS 39 CG -0.239 3.539
my_msa_consurf_7ckl.pdb #11/A SER 651 OG my_msa_consurf_7ckl.pdb #11/A ALA 648 O -0.240 2.720
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 C -0.243 3.493
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 -0.243 3.763
my_msa_consurf_7ckl.pdb #11/A PHE 1381 CE1 my_msa_consurf_7ckl.pdb #11/B TRP 35 CB -0.243 3.883
my_msa_consurf_7ckl.pdb #11/B PHE 36 CD2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CB -0.246 3.886
my_msa_consurf_7ckl.pdb #11/A VAL 650 N my_msa_consurf_7ckl.pdb #11/A TYR 649 CD2 -0.246 3.646
my_msa_consurf_7ckl.pdb #11/B CYS 31 O my_msa_consurf_7ckl.pdb #11/B SER 33 N -0.247 2.907
my_msa_consurf_7ckl.pdb #11/A LYS 263 CG my_msa_consurf_7ckl.pdb #11/A TYR 649 OH -0.251 3.591
my_msa_consurf_7ckl.pdb #11/B ASN 52 O my_msa_consurf_7ckl.pdb #11/B LEU 56 N -0.253 2.913
my_msa_consurf_7ckl.pdb #11/B PRO 28 O my_msa_consurf_7ckl.pdb #11/B GLY 27 O -0.253 3.093
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 50 CB -0.254 3.904
my_msa_consurf_7ckl.pdb #11/A GLU 608 O my_msa_consurf_7ckl.pdb #11/A LEU 609 CD2 -0.254 3.554
my_msa_consurf_7ckl.pdb #11/B CYS 53 N my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.256 3.266
my_msa_consurf_7ckl.pdb #11/A THR 695 O my_msa_consurf_7ckl.pdb #11/A LYS 699 N -0.256 2.916
my_msa_consurf_7ckl.pdb #11/A HIS 1348 CB my_msa_consurf_7ckl.pdb #11/A GLU 1345 O -0.256 3.556
my_msa_consurf_7ckl.pdb #11/B SER 33 CA my_msa_consurf_7ckl.pdb #11/A MET 693 CA -0.259 4.019
my_msa_consurf_7ckl.pdb #11/B CYS 53 SG my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.259 3.399
my_msa_consurf_7ckl.pdb #11/A VAL 690 O my_msa_consurf_7ckl.pdb #11/A SER 692 CB -0.259 3.559
my_msa_consurf_7ckl.pdb #11/A LYS 263 O my_msa_consurf_7ckl.pdb #11/A LEU 267 N -0.261 2.921
my_msa_consurf_7ckl.pdb #11/A HIS 1348 N my_msa_consurf_7ckl.pdb #11/A THR 1344 O -0.262 2.922
my_msa_consurf_7ckl.pdb #11/A SER 1183 N my_msa_consurf_7ckl.pdb #11/A LYS 1179 O -0.264 2.924
my_msa_consurf_7ckl.pdb #11/A SER 692 O my_msa_consurf_7ckl.pdb #11/A MET 693 O -0.265 3.105
my_msa_consurf_7ckl.pdb #11/A SER 651 CB my_msa_consurf_7ckl.pdb #11/A GLY 1379 CA -0.277 4.037
my_msa_consurf_7ckl.pdb #11/A SER 651 OG my_msa_consurf_7ckl.pdb #11/A ALA 648 CA -0.277 3.617
my_msa_consurf_7ckl.pdb #11/B ASN 52 C my_msa_consurf_7ckl.pdb #11/B THR 55 CG2 -0.279 3.769
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 my_msa_consurf_7ckl.pdb #11/A MET 694 CG -0.284 3.924
my_msa_consurf_7ckl.pdb #11/B CYS 31 CB my_msa_consurf_7ckl.pdb #11/B CYS 50 CB -0.285 4.045
my_msa_consurf_7ckl.pdb #11/A LYS 263 CD my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ -0.288 3.778
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 694 CB -0.291 3.591
my_msa_consurf_7ckl.pdb #11/A LYS 263 CA my_msa_consurf_7ckl.pdb #11/A TYR 649 CE1 -0.291 3.931
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.300 3.700
my_msa_consurf_7ckl.pdb #11/A PHE 698 CZ my_msa_consurf_7ckl.pdb #11/A LEU 702 CD2 -0.301 3.941
my_msa_consurf_7ckl.pdb #11/A ALA 1185 N my_msa_consurf_7ckl.pdb #11/A VAL 1182 O -0.303 2.963
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 -0.303 3.793
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.305 3.945
my_msa_consurf_7ckl.pdb #11/B CYS 53 CA my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.309 3.959
my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG2 my_msa_consurf_7ckl.pdb #11/A ASP 1394 CG -0.309 4.069
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.310 3.450
my_msa_consurf_7ckl.pdb #11/B ASN 38 CB my_msa_consurf_7ckl.pdb #11/B PHE 30 CE1 -0.312 3.952
my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG2 my_msa_consurf_7ckl.pdb #11/A ASP 1394 OD2 -0.313 3.613
my_msa_consurf_7ckl.pdb #11/A HIS 1348 CA my_msa_consurf_7ckl.pdb #11/A GLU 1345 O -0.315 3.615
my_msa_consurf_7ckl.pdb #11/A MET 693 O my_msa_consurf_7ckl.pdb #11/A ARG 697 CG -0.316 3.616
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 53 SG -0.318 3.458
my_msa_consurf_7ckl.pdb #11/A ASN 607 O my_msa_consurf_7ckl.pdb #11/A GLU 608 CD -0.321 3.621
my_msa_consurf_7ckl.pdb #11/A GLU 608 CA my_msa_consurf_7ckl.pdb #11/A CYS 606 SG -0.323 3.973
my_msa_consurf_7ckl.pdb #11/B CYS 34 O my_msa_consurf_7ckl.pdb #11/B PHE 36 N -0.326 2.986
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CA my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 -0.329 4.089
my_msa_consurf_7ckl.pdb #11/A ARG 1380 CA my_msa_consurf_7ckl.pdb #11/A VAL 1187 CA -0.329 4.089
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 my_msa_consurf_7ckl.pdb #11/A PHE 1381 CD1 -0.333 3.853
my_msa_consurf_7ckl.pdb #11/A HIS 1348 CB my_msa_consurf_7ckl.pdb #11/A GLU 1345 CA -0.338 4.098
my_msa_consurf_7ckl.pdb #11/B PHE 30 O my_msa_consurf_7ckl.pdb #11/B TYR 48 CB -0.340 3.640
my_msa_consurf_7ckl.pdb #11/A VAL 650 O my_msa_consurf_7ckl.pdb #11/A SER 651 O -0.342 3.182
my_msa_consurf_7ckl.pdb #11/B ASN 38 OD1 my_msa_consurf_7ckl.pdb #11/B LYS 39 CG -0.343 3.643
my_msa_consurf_7ckl.pdb #11/B PHE 30 CD1 my_msa_consurf_7ckl.pdb #11/B ASN 38 CB -0.349 3.989
my_msa_consurf_7ckl.pdb #11/B PRO 65 CD my_msa_consurf_7ckl.pdb #11/B CYS 64 SG -0.349 3.999
my_msa_consurf_7ckl.pdb #11/A LYS 263 CG my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ -0.351 3.841
my_msa_consurf_7ckl.pdb #11/A ARG 1380 CZ my_msa_consurf_7ckl.pdb #11/B PHE 30 CZ -0.353 3.723
my_msa_consurf_7ckl.pdb #11/A ASN 607 O my_msa_consurf_7ckl.pdb #11/A GLU 608 CG -0.353 3.653
my_msa_consurf_7ckl.pdb #11/A ALA 1185 CA my_msa_consurf_7ckl.pdb #11/A VAL 1182 O -0.357 3.657
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 O -0.358 3.018
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 -0.358 3.878
my_msa_consurf_7ckl.pdb #11/A HIS 1348 N my_msa_consurf_7ckl.pdb #11/A GLU 1345 C -0.359 3.609
my_msa_consurf_7ckl.pdb #11/A SER 651 C my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 -0.359 3.849
my_msa_consurf_7ckl.pdb #11/B LEU 57 CD2 my_msa_consurf_7ckl.pdb #11/B LEU 56 C -0.361 3.851
my_msa_consurf_7ckl.pdb #11/A VAL 690 O my_msa_consurf_7ckl.pdb #11/A SER 692 N -0.361 3.021
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 -0.362 3.732
my_msa_consurf_7ckl.pdb #11/A VAL 690 CB my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 -0.364 3.884
my_msa_consurf_7ckl.pdb #11/A PHE 698 CE1 my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 -0.366 4.006
my_msa_consurf_7ckl.pdb #11/B ASN 52 O my_msa_consurf_7ckl.pdb #11/B LEU 56 CA -0.367 3.667
my_msa_consurf_7ckl.pdb #11/A PHE 1381 O my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 -0.369 3.669
my_msa_consurf_7ckl.pdb #11/A PHE 698 CB my_msa_consurf_7ckl.pdb #11/A THR 695 O -0.374 3.674
my_msa_consurf_7ckl.pdb #11/B PHE 30 CE1 my_msa_consurf_7ckl.pdb #11/B ASN 38 ND2 -0.375 3.775
my_msa_consurf_7ckl.pdb #11/A GLU 608 O my_msa_consurf_7ckl.pdb #11/A GLU 611 CD -0.377 3.677
my_msa_consurf_7ckl.pdb #11/A PHE 1381 O my_msa_consurf_7ckl.pdb #11/A VAL 1391 CA -0.378 3.678
my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 -0.378 3.898
my_msa_consurf_7ckl.pdb #11/A MET 694 O my_msa_consurf_7ckl.pdb #11/A PHE 698 CA -0.380 3.680
my_msa_consurf_7ckl.pdb #11/B CYS 31 CB my_msa_consurf_7ckl.pdb #11/B CYS 34 SG -0.381 4.031
my_msa_consurf_7ckl.pdb #11/A MET 693 SD my_msa_consurf_7ckl.pdb #11/A CYS 606 CA -0.388 4.038
my_msa_consurf_7ckl.pdb #11/A MET 1184 CG my_msa_consurf_7ckl.pdb #11/A LEU 1180 O -0.388 3.688
my_msa_consurf_7ckl.pdb #11/A PHE 698 O my_msa_consurf_7ckl.pdb #11/A LEU 702 CA -0.389 3.689
my_msa_consurf_7ckl.pdb #11/A GLU 608 CG my_msa_consurf_7ckl.pdb #11/B LEU 56 CD2 -0.392 4.152
my_msa_consurf_7ckl.pdb #11/A SER 1183 CA my_msa_consurf_7ckl.pdb #11/A LYS 1179 O -0.392 3.692
my_msa_consurf_7ckl.pdb #11/B PHE 30 CD1 my_msa_consurf_7ckl.pdb #11/B GLN 29 O -0.394 3.574
my_msa_consurf_7ckl.pdb #11/A GLU 608 N my_msa_consurf_7ckl.pdb #11/A CYS 606 O -0.394 3.054
my_msa_consurf_7ckl.pdb #11/B CYS 31 O my_msa_consurf_7ckl.pdb #11/B TRP 35 N -0.395 3.055
my_msa_consurf_7ckl.pdb #11/B TRP 35 CD1 my_msa_consurf_7ckl.pdb #11/B LYS 32 O -0.396 3.576
my_msa_consurf_7ckl.pdb #11/A SER 1183 CB my_msa_consurf_7ckl.pdb #11/A LEU 1180 O -0.398 3.698
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG1 my_msa_consurf_7ckl.pdb #11/A VAL 685 O -0.399 3.699
my_msa_consurf_7ckl.pdb #11/A THR 695 OG1 my_msa_consurf_7ckl.pdb #11/A ASN 696 OD1 -0.400 2.880
231 contacts
> hide #12 models
> select clear
> undo
> contacts sel resSeparation 5 intraRes true ignoreHiddenModels true select
> true color #fffb00 reveal true log true
Allowed overlap: -0.4
H-bond overlap reduction: 0.4
Ignore contacts between atoms separated by 4 bonds or less
Ignore contacts between atoms in residues less than 5 apart in sequence
Detect intra-residue contacts: True
Detect intra-molecule contacts: True
149 contacts
atom1 atom2 overlap distance
my_msa_consurf_7ckl.pdb #11/B PHE 36 CZ my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ 0.802 2.598
my_msa_consurf_7ckl.pdb #11/B PHE 36 CE2 my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ 0.709 2.691
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 0.691 2.709
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 my_msa_consurf_7ckl.pdb #11/B TRP 35 CD1 0.394 3.126
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A SER 692 O 0.373 2.287
my_msa_consurf_7ckl.pdb #11/A SER 651 CB my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG1 0.352 3.408
my_msa_consurf_7ckl.pdb #11/B CYS 53 SG my_msa_consurf_7ckl.pdb #11/B SER 33 OG 0.341 2.489
my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 my_msa_consurf_7ckl.pdb #11/B LYS 32 CD 0.304 3.216
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 0.233 3.287
my_msa_consurf_7ckl.pdb #11/B PHE 30 CZ my_msa_consurf_7ckl.pdb #11/A ARG 1380 NH2 0.224 3.176
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A ARG 697 NH2 0.206 3.314
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ2 my_msa_consurf_7ckl.pdb #11/B LYS 32 CG 0.192 3.448
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A SER 651 O 0.186 3.114
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 CB 0.174 3.586
my_msa_consurf_7ckl.pdb #11/B SER 33 CB my_msa_consurf_7ckl.pdb #11/B CYS 53 SG 0.144 3.506
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ2 0.140 3.500
my_msa_consurf_7ckl.pdb #11/A VAL 650 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 0.134 3.506
my_msa_consurf_7ckl.pdb #11/A PHE 1381 CE1 my_msa_consurf_7ckl.pdb #11/B TRP 35 O 0.134 3.046
my_msa_consurf_7ckl.pdb #11/B CYS 53 CB my_msa_consurf_7ckl.pdb #11/B SER 33 OG 0.123 3.217
my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ my_msa_consurf_7ckl.pdb #11/B PHE 36 CE1 0.105 3.295
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG1 my_msa_consurf_7ckl.pdb #11/A MET 647 CE 0.102 3.658
my_msa_consurf_7ckl.pdb #11/A LYS 263 CB my_msa_consurf_7ckl.pdb #11/A TYR 649 OH 0.101 3.239
my_msa_consurf_7ckl.pdb #11/B VAL 60 CG1 my_msa_consurf_7ckl.pdb #11/A ASP 605 OD1 0.099 3.201
my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 698 CE2 0.088 3.552
my_msa_consurf_7ckl.pdb #11/A VAL 650 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ3 0.075 3.565
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 0.074 3.566
my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 my_msa_consurf_7ckl.pdb #11/A ASN 607 ND2 0.071 3.449
my_msa_consurf_7ckl.pdb #11/A HIS 1186 CD2 my_msa_consurf_7ckl.pdb #11/A ASN 1181 OD1 0.067 3.113
my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 my_msa_consurf_7ckl.pdb #11/B LYS 32 CD 0.061 3.579
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B GLU 37 CG 0.058 3.702
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 0.054 3.346
my_msa_consurf_7ckl.pdb #11/A TYR 649 OH my_msa_consurf_7ckl.pdb #11/A LYS 263 CD 0.053 3.287
my_msa_consurf_7ckl.pdb #11/A ASP 605 O my_msa_consurf_7ckl.pdb #11/A MET 693 SD 0.048 3.142
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG2 my_msa_consurf_7ckl.pdb #11/A MET 647 SD 0.043 3.607
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A ILE 701 CG2 0.040 3.720
my_msa_consurf_7ckl.pdb #11/B TRP 35 O my_msa_consurf_7ckl.pdb #11/A PHE 1381 CZ 0.034 3.146
my_msa_consurf_7ckl.pdb #11/A PHE 1381 O my_msa_consurf_7ckl.pdb #11/A VAL 1391 O 0.023 2.817
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 0.022 3.348
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 0.016 3.624
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 53 CB 0.012 3.638
my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG1 0.010 3.750
my_msa_consurf_7ckl.pdb #11/B CYS 64 SG my_msa_consurf_7ckl.pdb #11/B LEU 71 CD2 0.001 3.649
my_msa_consurf_7ckl.pdb #11/A SER 692 OG my_msa_consurf_7ckl.pdb #11/B LEU 57 CD2 -0.004 3.344
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A ASP 652 CA -0.009 3.769
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG2 my_msa_consurf_7ckl.pdb #11/A MET 647 CE -0.010 3.770
my_msa_consurf_7ckl.pdb #11/A ASN 607 CB my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 -0.015 3.775
my_msa_consurf_7ckl.pdb #11/A ASN 607 ND2 my_msa_consurf_7ckl.pdb #11/B LEU 56 O -0.018 2.678
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN -0.020 2.390
my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.021 2.391
my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN my_msa_consurf_7ckl.pdb #11/B CYS 53 SG -0.022 2.392
my_msa_consurf_7ckl.pdb #11/B CYS 64 SG my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN -0.023 2.393
my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN my_msa_consurf_7ckl.pdb #11/B CYS 34 SG -0.029 2.399
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A ARG 697 CZ -0.038 3.528
my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ my_msa_consurf_7ckl.pdb #11/B PHE 36 CD2 -0.039 3.439
my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 my_msa_consurf_7ckl.pdb #11/A ASN 607 CG -0.040 3.530
my_msa_consurf_7ckl.pdb #11/A LEU 609 CD2 my_msa_consurf_7ckl.pdb #11/A LEU 684 O -0.041 3.341
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 693 CA -0.050 3.350
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 -0.059 3.579
my_msa_consurf_7ckl.pdb #11/B LEU 56 CD2 my_msa_consurf_7ckl.pdb #11/A SER 692 CB -0.060 3.820
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A SER 692 C -0.066 3.316
my_msa_consurf_7ckl.pdb #11/A ARG 1380 NH2 my_msa_consurf_7ckl.pdb #11/B PHE 30 CE2 -0.066 3.466
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 -0.076 3.596
my_msa_consurf_7ckl.pdb #11/A ASP 605 O my_msa_consurf_7ckl.pdb #11/A MET 693 CE -0.079 3.379
my_msa_consurf_7ckl.pdb #11/A VAL 650 CG1 my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG1 -0.079 3.839
my_msa_consurf_7ckl.pdb #11/A ASP 605 CG my_msa_consurf_7ckl.pdb #11/B VAL 60 CG1 -0.081 3.841
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 CB -0.083 3.603
my_msa_consurf_7ckl.pdb #11/A ALA 1185 CB my_msa_consurf_7ckl.pdb #11/B PRO 28 CG -0.083 3.843
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 694 N -0.089 2.749
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 my_msa_consurf_7ckl.pdb #11/B PHE 30 CA -0.096 3.856
my_msa_consurf_7ckl.pdb #11/B HIS 47 CB my_msa_consurf_7ckl.pdb #11/B LYS 32 NZ -0.096 3.616
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG1 my_msa_consurf_7ckl.pdb #11/A MET 647 SD -0.101 3.751
my_msa_consurf_7ckl.pdb #11/A HIS 1186 O my_msa_consurf_7ckl.pdb #11/A ARG 1380 CA -0.102 3.402
my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 my_msa_consurf_7ckl.pdb #11/A GLY 1393 N -0.107 3.627
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/A TYR 649 CE2 -0.109 3.749
my_msa_consurf_7ckl.pdb #11/B TYR 48 CB my_msa_consurf_7ckl.pdb #11/B LEU 41 CB -0.110 3.870
my_msa_consurf_7ckl.pdb #11/B CYS 50 N my_msa_consurf_7ckl.pdb #11/B CYS 31 SG -0.123 3.133
my_msa_consurf_7ckl.pdb #11/B CYS 31 CB my_msa_consurf_7ckl.pdb #11/B CYS 50 N -0.127 3.647
my_msa_consurf_7ckl.pdb #11/B GLN 29 C my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 -0.130 3.620
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B LEU 49 CA -0.138 3.788
my_msa_consurf_7ckl.pdb #11/A PHE 698 CD2 my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 -0.138 3.778
my_msa_consurf_7ckl.pdb #11/A ALA 1185 CB my_msa_consurf_7ckl.pdb #11/B PRO 28 CB -0.139 3.899
my_msa_consurf_7ckl.pdb #11/B LEU 57 CD1 my_msa_consurf_7ckl.pdb #11/B PRO 65 CG -0.140 3.900
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B LEU 49 CD1 -0.143 3.793
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 my_msa_consurf_7ckl.pdb #11/B PHE 30 N -0.146 3.666
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 CA -0.156 3.676
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 CG -0.173 3.663
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B ILE 66 CD1 -0.174 3.934
my_msa_consurf_7ckl.pdb #11/A TYR 649 CE1 my_msa_consurf_7ckl.pdb #11/A LYS 263 CB -0.178 3.818
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 698 CD1 -0.182 3.822
my_msa_consurf_7ckl.pdb #11/B TRP 35 CD1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.183 3.703
my_msa_consurf_7ckl.pdb #11/B LYS 32 CD my_msa_consurf_7ckl.pdb #11/B HIS 47 CG -0.187 3.677
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B LEU 41 CD2 -0.190 3.950
my_msa_consurf_7ckl.pdb #11/A ASP 652 OD2 my_msa_consurf_7ckl.pdb #11/A ARG 1380 CD -0.192 3.492
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 my_msa_consurf_7ckl.pdb #11/B TYR 48 CB -0.194 3.954
my_msa_consurf_7ckl.pdb #11/A TRP 1392 NE1 my_msa_consurf_7ckl.pdb #11/B LYS 32 CE -0.196 3.716
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/B PHE 36 CZ -0.204 3.844
my_msa_consurf_7ckl.pdb #11/A LEU 702 CD2 my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD2 -0.213 3.973
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A SER 692 N -0.213 3.493
my_msa_consurf_7ckl.pdb #11/A LYS 263 CB my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ -0.215 3.705
my_msa_consurf_7ckl.pdb #11/A PHE 698 CZ my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG2 -0.222 3.862
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 my_msa_consurf_7ckl.pdb #11/B LYS 32 CA -0.225 3.865
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/B PHE 36 CE2 -0.233 3.873
my_msa_consurf_7ckl.pdb #11/A VAL 685 O my_msa_consurf_7ckl.pdb #11/A ARG 697 CD -0.238 3.538
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 C -0.243 3.493
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 -0.243 3.763
my_msa_consurf_7ckl.pdb #11/A PHE 1381 CE1 my_msa_consurf_7ckl.pdb #11/B TRP 35 CB -0.243 3.883
my_msa_consurf_7ckl.pdb #11/A TYR 649 OH my_msa_consurf_7ckl.pdb #11/A LYS 263 CG -0.251 3.591
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B CYS 31 SG -0.254 3.904
my_msa_consurf_7ckl.pdb #11/B SER 33 CA my_msa_consurf_7ckl.pdb #11/A MET 693 CA -0.259 4.019
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A ILE 701 CB -0.262 4.022
my_msa_consurf_7ckl.pdb #11/A ALA 648 CA my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG2 -0.270 4.030
my_msa_consurf_7ckl.pdb #11/A SER 651 CB my_msa_consurf_7ckl.pdb #11/A GLY 1379 CA -0.277 4.037
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 my_msa_consurf_7ckl.pdb #11/A MET 694 CG -0.284 3.924
my_msa_consurf_7ckl.pdb #11/B CYS 31 CB my_msa_consurf_7ckl.pdb #11/B CYS 50 CB -0.285 4.045
my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ my_msa_consurf_7ckl.pdb #11/A LYS 263 CD -0.288 3.778
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 694 CB -0.291 3.591
my_msa_consurf_7ckl.pdb #11/A LYS 263 CA my_msa_consurf_7ckl.pdb #11/A TYR 649 CE1 -0.291 3.931
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.300 3.700
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 -0.303 3.793
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.305 3.945
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.310 3.450
my_msa_consurf_7ckl.pdb #11/A HIS 1186 CD2 my_msa_consurf_7ckl.pdb #11/A ASN 1181 O -0.310 3.490
my_msa_consurf_7ckl.pdb #11/B ASN 38 CB my_msa_consurf_7ckl.pdb #11/B PHE 30 CE1 -0.312 3.952
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 53 SG -0.318 3.458
my_msa_consurf_7ckl.pdb #11/B CYS 64 SG my_msa_consurf_7ckl.pdb #11/B CYS 44 SG -0.319 3.459
my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CA -0.329 4.089
my_msa_consurf_7ckl.pdb #11/A ARG 1380 CA my_msa_consurf_7ckl.pdb #11/A VAL 1187 CA -0.329 4.089
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 my_msa_consurf_7ckl.pdb #11/A PHE 1381 CD1 -0.333 3.853
my_msa_consurf_7ckl.pdb #11/B PHE 30 O my_msa_consurf_7ckl.pdb #11/B TYR 48 CB -0.340 3.640
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A ASP 652 C -0.342 3.832
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B GLU 37 CB -0.346 4.106
my_msa_consurf_7ckl.pdb #11/B PHE 30 CD1 my_msa_consurf_7ckl.pdb #11/B ASN 38 CB -0.349 3.989
my_msa_consurf_7ckl.pdb #11/A LEU 702 CD2 my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG2 -0.350 4.110
my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ my_msa_consurf_7ckl.pdb #11/A LYS 263 CG -0.351 3.841
my_msa_consurf_7ckl.pdb #11/A ARG 1380 CZ my_msa_consurf_7ckl.pdb #11/B PHE 30 CZ -0.353 3.723
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 O -0.358 3.018
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 -0.358 3.878
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A SER 651 C -0.359 3.849
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 -0.362 3.732
my_msa_consurf_7ckl.pdb #11/A VAL 690 CB my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 -0.364 3.884
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 698 CE1 -0.366 4.006
my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 1381 O -0.369 3.669
my_msa_consurf_7ckl.pdb #11/B PHE 30 CE1 my_msa_consurf_7ckl.pdb #11/B ASN 38 ND2 -0.375 3.775
my_msa_consurf_7ckl.pdb #11/A PHE 1381 O my_msa_consurf_7ckl.pdb #11/A VAL 1391 CA -0.378 3.678
my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 -0.378 3.898
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A ASP 652 O -0.387 3.687
my_msa_consurf_7ckl.pdb #11/A MET 693 SD my_msa_consurf_7ckl.pdb #11/A CYS 606 CA -0.388 4.038
my_msa_consurf_7ckl.pdb #11/A GLU 608 CG my_msa_consurf_7ckl.pdb #11/B LEU 56 CD2 -0.392 4.152
my_msa_consurf_7ckl.pdb #11/A VAL 685 O my_msa_consurf_7ckl.pdb #11/A VAL 690 CG1 -0.399 3.699
149 contacts
> contacts sel intraRes true ignoreHiddenModels true select true color #fffb00
> reveal true log true
Allowed overlap: -0.4
H-bond overlap reduction: 0.4
Ignore contacts between atoms separated by 4 bonds or less
Detect intra-residue contacts: True
Detect intra-molecule contacts: True
232 contacts
atom1 atom2 overlap distance
my_msa_consurf_7ckl.pdb #11/B PHE 36 CZ my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ 0.802 2.598
my_msa_consurf_7ckl.pdb #11/B PHE 36 CE2 my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ 0.709 2.691
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 0.691 2.709
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 my_msa_consurf_7ckl.pdb #11/B TRP 35 CD1 0.394 3.126
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A SER 692 O 0.373 2.287
my_msa_consurf_7ckl.pdb #11/A SER 651 CB my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG1 0.352 3.408
my_msa_consurf_7ckl.pdb #11/B CYS 53 SG my_msa_consurf_7ckl.pdb #11/B SER 33 OG 0.341 2.489
my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 my_msa_consurf_7ckl.pdb #11/B LYS 32 CD 0.304 3.216
my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 my_msa_consurf_7ckl.pdb #11/B LEU 49 CD2 0.295 3.345
my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 my_msa_consurf_7ckl.pdb #11/B TYR 48 N 0.243 3.037
my_msa_consurf_7ckl.pdb #11/B CYS 53 CB my_msa_consurf_7ckl.pdb #11/B CYS 50 SG 0.233 3.417
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 0.233 3.287
my_msa_consurf_7ckl.pdb #11/B PHE 30 CZ my_msa_consurf_7ckl.pdb #11/A ARG 1380 NH2 0.224 3.176
my_msa_consurf_7ckl.pdb #11/A HIS 1186 CD2 my_msa_consurf_7ckl.pdb #11/A MET 1184 CB 0.216 3.424
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A ARG 697 NH2 0.206 3.314
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ2 my_msa_consurf_7ckl.pdb #11/B LYS 32 CG 0.192 3.448
my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 my_msa_consurf_7ckl.pdb #11/B TYR 48 O 0.187 2.993
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A SER 651 O 0.186 3.114
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 CB 0.174 3.586
my_msa_consurf_7ckl.pdb #11/A SER 692 O my_msa_consurf_7ckl.pdb #11/A MET 693 CG 0.151 3.149
my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD2 my_msa_consurf_7ckl.pdb #11/A TYR 706 CD2 0.147 3.493
my_msa_consurf_7ckl.pdb #11/B SER 33 CB my_msa_consurf_7ckl.pdb #11/B CYS 53 SG 0.144 3.506
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ2 0.140 3.500
my_msa_consurf_7ckl.pdb #11/A VAL 650 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 0.134 3.506
my_msa_consurf_7ckl.pdb #11/A PHE 1381 CE1 my_msa_consurf_7ckl.pdb #11/B TRP 35 O 0.134 3.046
my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG2 my_msa_consurf_7ckl.pdb #11/A PHE 1389 CB 0.128 3.632
my_msa_consurf_7ckl.pdb #11/A MET 693 SD my_msa_consurf_7ckl.pdb #11/A ASN 696 ND2 0.125 2.885
my_msa_consurf_7ckl.pdb #11/B CYS 53 CB my_msa_consurf_7ckl.pdb #11/B SER 33 OG 0.123 3.217
my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ my_msa_consurf_7ckl.pdb #11/B PHE 36 CE1 0.105 3.295
my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG2 my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD2 0.104 3.656
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG1 my_msa_consurf_7ckl.pdb #11/A MET 647 CE 0.102 3.658
my_msa_consurf_7ckl.pdb #11/A LYS 263 CB my_msa_consurf_7ckl.pdb #11/A TYR 649 OH 0.101 3.239
my_msa_consurf_7ckl.pdb #11/B PHE 36 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 34 O 0.101 3.079
my_msa_consurf_7ckl.pdb #11/A ASP 605 OD1 my_msa_consurf_7ckl.pdb #11/B VAL 60 CG1 0.099 3.201
my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG2 my_msa_consurf_7ckl.pdb #11/A SER 1376 O 0.098 3.202
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG1 my_msa_consurf_7ckl.pdb #11/A SER 687 OG 0.095 3.245
my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 698 CE2 0.088 3.552
my_msa_consurf_7ckl.pdb #11/A VAL 650 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ3 0.075 3.565
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 0.074 3.566
my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 my_msa_consurf_7ckl.pdb #11/A ASN 607 ND2 0.071 3.449
my_msa_consurf_7ckl.pdb #11/A ASN 1181 OD1 my_msa_consurf_7ckl.pdb #11/A HIS 1186 CB 0.069 3.231
my_msa_consurf_7ckl.pdb #11/A HIS 1186 CD2 my_msa_consurf_7ckl.pdb #11/A ASN 1181 OD1 0.067 3.113
my_msa_consurf_7ckl.pdb #11/B GLN 29 C my_msa_consurf_7ckl.pdb #11/B PHE 30 CD2 0.063 3.307
my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 my_msa_consurf_7ckl.pdb #11/B LYS 32 CD 0.061 3.579
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B GLU 37 CG 0.058 3.702
my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD2 my_msa_consurf_7ckl.pdb #11/A TYR 706 CE2 0.058 3.582
my_msa_consurf_7ckl.pdb #11/A MET 647 CE my_msa_consurf_7ckl.pdb #11/A GLU 1384 CB 0.054 3.706
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 0.054 3.346
my_msa_consurf_7ckl.pdb #11/A TYR 649 OH my_msa_consurf_7ckl.pdb #11/A LYS 263 CD 0.053 3.287
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A SER 687 O 0.052 3.248
my_msa_consurf_7ckl.pdb #11/A ASP 605 O my_msa_consurf_7ckl.pdb #11/A MET 693 SD 0.048 3.142
my_msa_consurf_7ckl.pdb #11/A MET 647 SD my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG2 0.043 3.607
my_msa_consurf_7ckl.pdb #11/A ASP 652 C my_msa_consurf_7ckl.pdb #11/A TYR 653 CD2 0.041 3.329
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A ILE 701 CG2 0.040 3.720
my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG2 my_msa_consurf_7ckl.pdb #11/A LEU 1398 CG 0.037 3.723
my_msa_consurf_7ckl.pdb #11/B TRP 35 O my_msa_consurf_7ckl.pdb #11/A PHE 1381 CZ 0.034 3.146
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B SER 33 OG 0.027 2.803
my_msa_consurf_7ckl.pdb #11/A PHE 1381 O my_msa_consurf_7ckl.pdb #11/A VAL 1391 O 0.023 2.817
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 0.022 3.348
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 0.016 3.624
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 53 CB 0.012 3.638
my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG1 0.010 3.750
my_msa_consurf_7ckl.pdb #11/A ASP 605 O my_msa_consurf_7ckl.pdb #11/A ASP 605 OD1 0.007 2.833
my_msa_consurf_7ckl.pdb #11/B LEU 71 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 64 SG 0.001 3.649
my_msa_consurf_7ckl.pdb #11/A SER 692 OG my_msa_consurf_7ckl.pdb #11/B LEU 57 CD2 -0.004 3.344
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A ASP 652 CA -0.009 3.769
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH2 my_msa_consurf_7ckl.pdb #11/A MET 694 SD -0.010 3.020
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG2 my_msa_consurf_7ckl.pdb #11/A MET 647 CE -0.010 3.770
my_msa_consurf_7ckl.pdb #11/A ASN 607 CB my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 -0.015 3.775
my_msa_consurf_7ckl.pdb #11/A ASN 607 ND2 my_msa_consurf_7ckl.pdb #11/B LEU 56 O -0.018 2.678
my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN my_msa_consurf_7ckl.pdb #11/B CYS 67 SG -0.019 2.389
my_msa_consurf_7ckl.pdb #11/B LEU 71 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 64 CB -0.019 3.779
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN -0.020 2.390
my_msa_consurf_7ckl.pdb #11/B CYS 44 SG my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN -0.020 2.390
my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.021 2.391
my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN my_msa_consurf_7ckl.pdb #11/B CYS 53 SG -0.022 2.392
my_msa_consurf_7ckl.pdb #11/B CYS 64 SG my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN -0.023 2.393
my_msa_consurf_7ckl.pdb #11/A ASP 652 O my_msa_consurf_7ckl.pdb #11/A TYR 653 CD2 -0.027 3.207
my_msa_consurf_7ckl.pdb #11/B CYS 34 SG my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN -0.029 2.399
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A ARG 697 CZ -0.038 3.528
my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ my_msa_consurf_7ckl.pdb #11/B PHE 36 CD2 -0.039 3.439
my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 my_msa_consurf_7ckl.pdb #11/A ASN 607 CG -0.040 3.530
my_msa_consurf_7ckl.pdb #11/A LEU 609 CD2 my_msa_consurf_7ckl.pdb #11/A LEU 684 O -0.041 3.341
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 693 CA -0.050 3.350
my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN my_msa_consurf_7ckl.pdb #11/B HIS 47 NE2 -0.056 2.296
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 -0.059 3.579
my_msa_consurf_7ckl.pdb #11/B LEU 56 CD2 my_msa_consurf_7ckl.pdb #11/A SER 692 CB -0.060 3.820
my_msa_consurf_7ckl.pdb #11/B LEU 57 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 53 O -0.061 3.361
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A SER 692 C -0.066 3.316
my_msa_consurf_7ckl.pdb #11/A ARG 1380 NH2 my_msa_consurf_7ckl.pdb #11/B PHE 30 CE2 -0.066 3.466
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 -0.076 3.596
my_msa_consurf_7ckl.pdb #11/B PHE 36 CD2 my_msa_consurf_7ckl.pdb #11/B TRP 35 C -0.078 3.448
my_msa_consurf_7ckl.pdb #11/A ASP 605 O my_msa_consurf_7ckl.pdb #11/A MET 693 CE -0.079 3.379
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG1 my_msa_consurf_7ckl.pdb #11/A VAL 650 CG1 -0.079 3.839
my_msa_consurf_7ckl.pdb #11/A ASP 652 C my_msa_consurf_7ckl.pdb #11/A VAL 261 CG1 -0.079 3.569
my_msa_consurf_7ckl.pdb #11/A ASP 605 CG my_msa_consurf_7ckl.pdb #11/B VAL 60 CG1 -0.081 3.841
my_msa_consurf_7ckl.pdb #11/A SER 651 C my_msa_consurf_7ckl.pdb #11/A ASP 652 OD1 -0.083 3.113
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 CB -0.083 3.603
my_msa_consurf_7ckl.pdb #11/A ALA 1185 CB my_msa_consurf_7ckl.pdb #11/B PRO 28 CG -0.083 3.843
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 694 N -0.089 2.749
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 my_msa_consurf_7ckl.pdb #11/B PHE 30 CA -0.096 3.856
my_msa_consurf_7ckl.pdb #11/B HIS 47 CB my_msa_consurf_7ckl.pdb #11/B LYS 32 NZ -0.096 3.616
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 50 CA -0.098 3.858
my_msa_consurf_7ckl.pdb #11/A MET 647 SD my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG1 -0.101 3.751
my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG2 my_msa_consurf_7ckl.pdb #11/A LYS 1375 O -0.102 3.402
my_msa_consurf_7ckl.pdb #11/A HIS 1186 O my_msa_consurf_7ckl.pdb #11/A ARG 1380 CA -0.102 3.402
my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 my_msa_consurf_7ckl.pdb #11/A GLY 1393 N -0.107 3.627
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/A TYR 649 CE2 -0.109 3.749
my_msa_consurf_7ckl.pdb #11/B TYR 48 CB my_msa_consurf_7ckl.pdb #11/B LEU 41 CB -0.110 3.870
my_msa_consurf_7ckl.pdb #11/A ASN 1181 OD1 my_msa_consurf_7ckl.pdb #11/A HIS 1186 CG -0.119 3.149
my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD2 my_msa_consurf_7ckl.pdb #11/A LEU 702 CG -0.119 3.879
my_msa_consurf_7ckl.pdb #11/B CYS 50 N my_msa_consurf_7ckl.pdb #11/B CYS 31 SG -0.123 3.133
my_msa_consurf_7ckl.pdb #11/A SER 651 O my_msa_consurf_7ckl.pdb #11/A ASP 652 OD1 -0.124 2.964
my_msa_consurf_7ckl.pdb #11/B CYS 31 CB my_msa_consurf_7ckl.pdb #11/B CYS 50 N -0.127 3.647
my_msa_consurf_7ckl.pdb #11/A ARG 697 CD my_msa_consurf_7ckl.pdb #11/A VAL 685 CG1 -0.127 3.887
my_msa_consurf_7ckl.pdb #11/B GLN 29 C my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 -0.130 3.620
my_msa_consurf_7ckl.pdb #11/B CYS 34 SG my_msa_consurf_7ckl.pdb #11/B GLU 37 CB -0.134 3.784
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B LEU 49 CA -0.138 3.788
my_msa_consurf_7ckl.pdb #11/A PHE 698 CD2 my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 -0.138 3.778
my_msa_consurf_7ckl.pdb #11/A ALA 1185 CB my_msa_consurf_7ckl.pdb #11/B PRO 28 CB -0.139 3.899
my_msa_consurf_7ckl.pdb #11/A MET 693 CE my_msa_consurf_7ckl.pdb #11/A ASN 696 ND2 -0.140 3.660
my_msa_consurf_7ckl.pdb #11/B LEU 57 CD1 my_msa_consurf_7ckl.pdb #11/B PRO 65 CG -0.140 3.900
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B LEU 49 CD1 -0.143 3.793
my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN my_msa_consurf_7ckl.pdb #11/B HIS 47 CD2 -0.145 2.505
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 my_msa_consurf_7ckl.pdb #11/B PHE 30 N -0.146 3.666
my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 my_msa_consurf_7ckl.pdb #11/B TYR 48 O -0.150 2.810
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG1 my_msa_consurf_7ckl.pdb #11/A ASP 689 O -0.155 3.455
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 CA -0.156 3.676
my_msa_consurf_7ckl.pdb #11/A MET 647 SD my_msa_consurf_7ckl.pdb #11/A MET 647 O -0.164 3.354
my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG2 my_msa_consurf_7ckl.pdb #11/A ALA 648 CB -0.165 3.925
my_msa_consurf_7ckl.pdb #11/A LEU 609 CD2 my_msa_consurf_7ckl.pdb #11/A GLU 608 C -0.171 3.661
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 CG -0.173 3.663
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B ILE 66 CD1 -0.174 3.934
my_msa_consurf_7ckl.pdb #11/A ASN 1181 O my_msa_consurf_7ckl.pdb #11/A HIS 1186 CB -0.176 3.476
my_msa_consurf_7ckl.pdb #11/B LEU 49 CD1 my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 -0.176 3.816
my_msa_consurf_7ckl.pdb #11/A TYR 649 CE1 my_msa_consurf_7ckl.pdb #11/A LYS 263 CB -0.178 3.818
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 698 CD1 -0.182 3.822
my_msa_consurf_7ckl.pdb #11/B TRP 35 CD1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.183 3.703
my_msa_consurf_7ckl.pdb #11/B LYS 32 CD my_msa_consurf_7ckl.pdb #11/B HIS 47 CG -0.187 3.677
my_msa_consurf_7ckl.pdb #11/B LEU 56 O my_msa_consurf_7ckl.pdb #11/B LEU 56 CD1 -0.189 3.489
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B LEU 41 CD2 -0.190 3.950
my_msa_consurf_7ckl.pdb #11/A ASP 652 OD2 my_msa_consurf_7ckl.pdb #11/A ARG 1380 CD -0.192 3.492
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 my_msa_consurf_7ckl.pdb #11/B TYR 48 CB -0.194 3.954
my_msa_consurf_7ckl.pdb #11/A TRP 1392 NE1 my_msa_consurf_7ckl.pdb #11/B LYS 32 CE -0.196 3.716
my_msa_consurf_7ckl.pdb #11/A ILE 701 CG2 my_msa_consurf_7ckl.pdb #11/A ILE 646 CB -0.196 3.956
my_msa_consurf_7ckl.pdb #11/A PHE 698 CD1 my_msa_consurf_7ckl.pdb #11/A PHE 698 O -0.201 3.381
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/B PHE 36 CZ -0.204 3.844
my_msa_consurf_7ckl.pdb #11/A ALA 648 CA my_msa_consurf_7ckl.pdb #11/A PHE 645 O -0.206 3.506
my_msa_consurf_7ckl.pdb #11/A LEU 702 CD2 my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD2 -0.213 3.973
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A SER 692 N -0.213 3.493
my_msa_consurf_7ckl.pdb #11/A LYS 263 CB my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ -0.215 3.705
my_msa_consurf_7ckl.pdb #11/B PRO 28 CB my_msa_consurf_7ckl.pdb #11/B PHE 30 CD2 -0.217 3.857
my_msa_consurf_7ckl.pdb #11/B CYS 44 SG my_msa_consurf_7ckl.pdb #11/B LEU 71 CD2 -0.220 3.870
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG2 my_msa_consurf_7ckl.pdb #11/A PHE 698 CZ -0.222 3.862
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 my_msa_consurf_7ckl.pdb #11/B LYS 32 CA -0.225 3.865
my_msa_consurf_7ckl.pdb #11/A ASP 652 O my_msa_consurf_7ckl.pdb #11/A TYR 653 CG -0.232 3.262
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/B PHE 36 CE2 -0.233 3.873
my_msa_consurf_7ckl.pdb #11/A VAL 685 O my_msa_consurf_7ckl.pdb #11/A ARG 697 CD -0.238 3.538
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 C -0.243 3.493
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 -0.243 3.763
my_msa_consurf_7ckl.pdb #11/A PHE 1381 CE1 my_msa_consurf_7ckl.pdb #11/B TRP 35 CB -0.243 3.883
my_msa_consurf_7ckl.pdb #11/B PHE 36 CD2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CB -0.246 3.886
my_msa_consurf_7ckl.pdb #11/A TYR 649 OH my_msa_consurf_7ckl.pdb #11/A LYS 263 CG -0.251 3.591
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B CYS 31 SG -0.254 3.904
my_msa_consurf_7ckl.pdb #11/A LEU 609 CD2 my_msa_consurf_7ckl.pdb #11/A GLU 608 O -0.254 3.554
my_msa_consurf_7ckl.pdb #11/B CYS 50 SG my_msa_consurf_7ckl.pdb #11/B CYS 53 N -0.256 3.266
my_msa_consurf_7ckl.pdb #11/B SER 33 CA my_msa_consurf_7ckl.pdb #11/A MET 693 CA -0.259 4.019
my_msa_consurf_7ckl.pdb #11/B CYS 53 SG my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.259 3.399
my_msa_consurf_7ckl.pdb #11/A SER 692 CB my_msa_consurf_7ckl.pdb #11/A VAL 690 O -0.259 3.559
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A ILE 701 CB -0.262 4.022
my_msa_consurf_7ckl.pdb #11/A SER 692 O my_msa_consurf_7ckl.pdb #11/A MET 693 O -0.265 3.105
my_msa_consurf_7ckl.pdb #11/A ALA 648 CA my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG2 -0.270 4.030
my_msa_consurf_7ckl.pdb #11/A SER 651 CB my_msa_consurf_7ckl.pdb #11/A GLY 1379 CA -0.277 4.037
my_msa_consurf_7ckl.pdb #11/A ALA 648 CA my_msa_consurf_7ckl.pdb #11/A SER 651 OG -0.277 3.617
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 my_msa_consurf_7ckl.pdb #11/A MET 694 CG -0.284 3.924
my_msa_consurf_7ckl.pdb #11/B CYS 31 CB my_msa_consurf_7ckl.pdb #11/B CYS 50 CB -0.285 4.045
my_msa_consurf_7ckl.pdb #11/B CYS 64 SG my_msa_consurf_7ckl.pdb #11/B CYS 67 SG -0.286 3.426
my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ my_msa_consurf_7ckl.pdb #11/A LYS 263 CD -0.288 3.778
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 694 CB -0.291 3.591
my_msa_consurf_7ckl.pdb #11/A LYS 263 CA my_msa_consurf_7ckl.pdb #11/A TYR 649 CE1 -0.291 3.931
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.300 3.700
my_msa_consurf_7ckl.pdb #11/A PHE 698 CZ my_msa_consurf_7ckl.pdb #11/A LEU 702 CD2 -0.301 3.941
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 -0.303 3.793
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.305 3.945
my_msa_consurf_7ckl.pdb #11/B CYS 50 SG my_msa_consurf_7ckl.pdb #11/B CYS 53 CA -0.309 3.959
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.310 3.450
my_msa_consurf_7ckl.pdb #11/A ASN 1181 O my_msa_consurf_7ckl.pdb #11/A HIS 1186 CD2 -0.310 3.490
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD2 my_msa_consurf_7ckl.pdb #11/B GLY 40 C -0.311 3.801
my_msa_consurf_7ckl.pdb #11/B CYS 44 SG my_msa_consurf_7ckl.pdb #11/B CYS 67 SG -0.311 3.451
my_msa_consurf_7ckl.pdb #11/B ASN 38 CB my_msa_consurf_7ckl.pdb #11/B PHE 30 CE1 -0.312 3.952
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 53 SG -0.318 3.458
my_msa_consurf_7ckl.pdb #11/B CYS 44 SG my_msa_consurf_7ckl.pdb #11/B CYS 64 SG -0.319 3.459
my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CA -0.329 4.089
my_msa_consurf_7ckl.pdb #11/A ARG 1380 CA my_msa_consurf_7ckl.pdb #11/A VAL 1187 CA -0.329 4.089
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 my_msa_consurf_7ckl.pdb #11/A PHE 1381 CD1 -0.333 3.853
my_msa_consurf_7ckl.pdb #11/B PHE 30 O my_msa_consurf_7ckl.pdb #11/B TYR 48 CB -0.340 3.640
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A ASP 652 C -0.342 3.832
my_msa_consurf_7ckl.pdb #11/A SER 651 O my_msa_consurf_7ckl.pdb #11/A VAL 650 O -0.342 3.182
my_msa_consurf_7ckl.pdb #11/B CYS 64 SG my_msa_consurf_7ckl.pdb #11/B CYS 67 CB -0.345 3.995
my_msa_consurf_7ckl.pdb #11/A ILE 701 CB my_msa_consurf_7ckl.pdb #11/A ARG 697 O -0.345 3.645
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B GLU 37 CB -0.346 4.106
my_msa_consurf_7ckl.pdb #11/B PHE 30 CD1 my_msa_consurf_7ckl.pdb #11/B ASN 38 CB -0.349 3.989
my_msa_consurf_7ckl.pdb #11/B CYS 64 SG my_msa_consurf_7ckl.pdb #11/B PRO 65 CD -0.349 3.999
my_msa_consurf_7ckl.pdb #11/A LEU 702 CD2 my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG2 -0.350 4.110
my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ my_msa_consurf_7ckl.pdb #11/A LYS 263 CG -0.351 3.841
my_msa_consurf_7ckl.pdb #11/A ARG 1380 CZ my_msa_consurf_7ckl.pdb #11/B PHE 30 CZ -0.353 3.723
my_msa_consurf_7ckl.pdb #11/A GLU 608 CG my_msa_consurf_7ckl.pdb #11/A ASN 607 O -0.353 3.653
my_msa_consurf_7ckl.pdb #11/B CYS 44 SG my_msa_consurf_7ckl.pdb #11/B HIS 47 CD2 -0.358 3.888
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 O -0.358 3.018
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 -0.358 3.878
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A SER 651 C -0.359 3.849
my_msa_consurf_7ckl.pdb #11/B LEU 57 CD2 my_msa_consurf_7ckl.pdb #11/B LEU 56 C -0.361 3.851
my_msa_consurf_7ckl.pdb #11/A SER 692 N my_msa_consurf_7ckl.pdb #11/A VAL 690 O -0.361 3.021
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 -0.362 3.732
my_msa_consurf_7ckl.pdb #11/A VAL 690 CB my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 -0.364 3.884
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 698 CE1 -0.366 4.006
my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG1 my_msa_consurf_7ckl.pdb #11/A ILE 1378 CA -0.366 4.126
my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 1381 O -0.369 3.669
my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 my_msa_consurf_7ckl.pdb #11/B TYR 48 C -0.371 3.621
my_msa_consurf_7ckl.pdb #11/B PHE 30 CE1 my_msa_consurf_7ckl.pdb #11/B ASN 38 ND2 -0.375 3.775
my_msa_consurf_7ckl.pdb #11/A PHE 1381 O my_msa_consurf_7ckl.pdb #11/A VAL 1391 CA -0.378 3.678
my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 -0.378 3.898
my_msa_consurf_7ckl.pdb #11/B CYS 31 CB my_msa_consurf_7ckl.pdb #11/B CYS 34 SG -0.381 4.031
my_msa_consurf_7ckl.pdb #11/A ASP 652 CA my_msa_consurf_7ckl.pdb #11/A VAL 261 CG1 -0.384 4.144
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A ASP 652 O -0.387 3.687
my_msa_consurf_7ckl.pdb #11/A MET 693 SD my_msa_consurf_7ckl.pdb #11/A CYS 606 CA -0.388 4.038
my_msa_consurf_7ckl.pdb #11/A GLU 608 CG my_msa_consurf_7ckl.pdb #11/B LEU 56 CD2 -0.392 4.152
my_msa_consurf_7ckl.pdb #11/B PHE 30 CD1 my_msa_consurf_7ckl.pdb #11/B GLN 29 O -0.394 3.574
my_msa_consurf_7ckl.pdb #11/B LEU 41 CB my_msa_consurf_7ckl.pdb #11/B LEU 49 O -0.395 3.695
my_msa_consurf_7ckl.pdb #11/B TRP 35 CD1 my_msa_consurf_7ckl.pdb #11/B LYS 32 O -0.396 3.576
my_msa_consurf_7ckl.pdb #11/A VAL 685 O my_msa_consurf_7ckl.pdb #11/A VAL 690 CG1 -0.399 3.699
my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 my_msa_consurf_7ckl.pdb #11/B TYR 48 CA -0.399 3.919
232 contacts
> contacts sel resSeparation 5 intraRes true ignoreHiddenModels true select
> true color #fffb00 reveal true log true
Allowed overlap: -0.4
H-bond overlap reduction: 0.4
Ignore contacts between atoms separated by 4 bonds or less
Ignore contacts between atoms in residues less than 5 apart in sequence
Detect intra-residue contacts: True
Detect intra-molecule contacts: True
194 contacts
atom1 atom2 overlap distance
my_msa_consurf_7ckl.pdb #11/B PHE 36 CZ my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ 0.802 2.598
my_msa_consurf_7ckl.pdb #11/B PHE 36 CE2 my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ 0.709 2.691
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 0.691 2.709
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 my_msa_consurf_7ckl.pdb #11/B TRP 35 CD1 0.394 3.126
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A SER 692 O 0.373 2.287
my_msa_consurf_7ckl.pdb #11/A SER 651 CB my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG1 0.352 3.408
my_msa_consurf_7ckl.pdb #11/B CYS 53 SG my_msa_consurf_7ckl.pdb #11/B SER 33 OG 0.341 2.489
my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 my_msa_consurf_7ckl.pdb #11/B LYS 32 CD 0.304 3.216
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG1 my_msa_consurf_7ckl.pdb #11/A TYR 654 CD1 0.233 3.407
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 0.233 3.287
my_msa_consurf_7ckl.pdb #11/B PHE 30 CZ my_msa_consurf_7ckl.pdb #11/A ARG 1380 NH2 0.224 3.176
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A ARG 697 NH2 0.206 3.314
my_msa_consurf_7ckl.pdb #11/B LEU 49 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 44 CB 0.193 3.567
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ2 my_msa_consurf_7ckl.pdb #11/B LYS 32 CG 0.192 3.448
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A SER 651 O 0.186 3.114
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 CB 0.174 3.586
my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD2 my_msa_consurf_7ckl.pdb #11/A TYR 706 CD2 0.147 3.493
my_msa_consurf_7ckl.pdb #11/B SER 33 CB my_msa_consurf_7ckl.pdb #11/B CYS 53 SG 0.144 3.506
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ2 0.140 3.500
my_msa_consurf_7ckl.pdb #11/A VAL 650 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 0.134 3.506
my_msa_consurf_7ckl.pdb #11/A PHE 1381 CE1 my_msa_consurf_7ckl.pdb #11/B TRP 35 O 0.134 3.046
my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG2 my_msa_consurf_7ckl.pdb #11/A PHE 1389 CB 0.128 3.632
my_msa_consurf_7ckl.pdb #11/A ALA 648 CB my_msa_consurf_7ckl.pdb #11/A LEU 658 CD2 0.125 3.635
my_msa_consurf_7ckl.pdb #11/B CYS 53 CB my_msa_consurf_7ckl.pdb #11/B SER 33 OG 0.123 3.217
my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ my_msa_consurf_7ckl.pdb #11/B PHE 36 CE1 0.105 3.295
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG1 my_msa_consurf_7ckl.pdb #11/A MET 647 CE 0.102 3.658
my_msa_consurf_7ckl.pdb #11/A LYS 263 CB my_msa_consurf_7ckl.pdb #11/A TYR 649 OH 0.101 3.239
my_msa_consurf_7ckl.pdb #11/B VAL 60 CG1 my_msa_consurf_7ckl.pdb #11/A ASP 605 OD1 0.099 3.201
my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 698 CE2 0.088 3.552
my_msa_consurf_7ckl.pdb #11/A VAL 650 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ3 0.075 3.565
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 0.074 3.566
my_msa_consurf_7ckl.pdb #11/B CYS 64 CB my_msa_consurf_7ckl.pdb #11/B MET 69 O 0.074 3.226
my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 my_msa_consurf_7ckl.pdb #11/A ASN 607 ND2 0.071 3.449
my_msa_consurf_7ckl.pdb #11/A HIS 1186 CB my_msa_consurf_7ckl.pdb #11/A ASN 1181 OD1 0.069 3.231
my_msa_consurf_7ckl.pdb #11/A HIS 1186 CD2 my_msa_consurf_7ckl.pdb #11/A ASN 1181 OD1 0.067 3.113
my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 my_msa_consurf_7ckl.pdb #11/B LYS 32 CD 0.061 3.579
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B GLU 37 CG 0.058 3.702
my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD2 my_msa_consurf_7ckl.pdb #11/A TYR 706 CE2 0.058 3.582
my_msa_consurf_7ckl.pdb #11/A MET 647 CE my_msa_consurf_7ckl.pdb #11/A GLU 1384 CB 0.054 3.706
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 0.054 3.346
my_msa_consurf_7ckl.pdb #11/A TYR 649 OH my_msa_consurf_7ckl.pdb #11/A LYS 263 CD 0.053 3.287
my_msa_consurf_7ckl.pdb #11/A ASP 605 O my_msa_consurf_7ckl.pdb #11/A MET 693 SD 0.048 3.142
my_msa_consurf_7ckl.pdb #11/A MET 647 SD my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG2 0.043 3.607
my_msa_consurf_7ckl.pdb #11/A ILE 701 CG2 my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 0.040 3.720
my_msa_consurf_7ckl.pdb #11/B TRP 35 O my_msa_consurf_7ckl.pdb #11/A PHE 1381 CZ 0.034 3.146
my_msa_consurf_7ckl.pdb #11/A PHE 1381 O my_msa_consurf_7ckl.pdb #11/A VAL 1391 O 0.023 2.817
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CZ3 0.022 3.348
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/B HIS 47 CE1 0.016 3.624
my_msa_consurf_7ckl.pdb #11/A HIS 1186 CB my_msa_consurf_7ckl.pdb #11/A ASN 1181 ND2 0.014 3.506
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 53 CB 0.012 3.638
my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG1 0.010 3.750
my_msa_consurf_7ckl.pdb #11/B LEU 71 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 64 SG 0.001 3.649
my_msa_consurf_7ckl.pdb #11/A SER 692 OG my_msa_consurf_7ckl.pdb #11/B LEU 57 CD2 -0.004 3.344
my_msa_consurf_7ckl.pdb #11/A ASP 652 CA my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 -0.009 3.769
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG2 my_msa_consurf_7ckl.pdb #11/A MET 647 CE -0.010 3.770
my_msa_consurf_7ckl.pdb #11/A ASN 607 CB my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 -0.015 3.775
my_msa_consurf_7ckl.pdb #11/A ASN 607 ND2 my_msa_consurf_7ckl.pdb #11/B LEU 56 O -0.018 2.678
my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN my_msa_consurf_7ckl.pdb #11/B CYS 67 SG -0.019 2.389
my_msa_consurf_7ckl.pdb #11/B LEU 71 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 64 CB -0.019 3.779
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN -0.020 2.390
my_msa_consurf_7ckl.pdb #11/B CYS 44 SG my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN -0.020 2.390
my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.021 2.391
my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN my_msa_consurf_7ckl.pdb #11/B CYS 53 SG -0.022 2.392
my_msa_consurf_7ckl.pdb #11/B CYS 64 SG my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN -0.023 2.393
my_msa_consurf_7ckl.pdb #11/B ZN 101 ZN my_msa_consurf_7ckl.pdb #11/B CYS 34 SG -0.029 2.399
my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 my_msa_consurf_7ckl.pdb #11/A ARG 697 CZ -0.038 3.528
my_msa_consurf_7ckl.pdb #11/A HIS 1186 CB my_msa_consurf_7ckl.pdb #11/A ASN 1181 CG -0.039 3.529
my_msa_consurf_7ckl.pdb #11/A LYS 263 NZ my_msa_consurf_7ckl.pdb #11/B PHE 36 CD2 -0.039 3.439
my_msa_consurf_7ckl.pdb #11/B VAL 60 CG2 my_msa_consurf_7ckl.pdb #11/A ASN 607 CG -0.040 3.530
my_msa_consurf_7ckl.pdb #11/A LEU 609 CD2 my_msa_consurf_7ckl.pdb #11/A LEU 684 O -0.041 3.341
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 693 CA -0.050 3.350
my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN my_msa_consurf_7ckl.pdb #11/B HIS 47 NE2 -0.056 2.296
my_msa_consurf_7ckl.pdb #11/B LEU 49 O my_msa_consurf_7ckl.pdb #11/B LEU 41 CA -0.058 3.358
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 -0.059 3.579
my_msa_consurf_7ckl.pdb #11/B LEU 56 CD2 my_msa_consurf_7ckl.pdb #11/A SER 692 CB -0.060 3.820
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A SER 692 C -0.066 3.316
my_msa_consurf_7ckl.pdb #11/A ARG 1380 NH2 my_msa_consurf_7ckl.pdb #11/B PHE 30 CE2 -0.066 3.466
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 -0.076 3.596
my_msa_consurf_7ckl.pdb #11/A ASP 605 O my_msa_consurf_7ckl.pdb #11/A MET 693 CE -0.079 3.379
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG1 my_msa_consurf_7ckl.pdb #11/A VAL 650 CG1 -0.079 3.839
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG1 my_msa_consurf_7ckl.pdb #11/A ASP 652 C -0.079 3.569
my_msa_consurf_7ckl.pdb #11/A ASP 605 CG my_msa_consurf_7ckl.pdb #11/B VAL 60 CG1 -0.081 3.841
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 CB -0.083 3.603
my_msa_consurf_7ckl.pdb #11/A ALA 1185 CB my_msa_consurf_7ckl.pdb #11/B PRO 28 CG -0.083 3.843
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 694 N -0.089 2.749
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 my_msa_consurf_7ckl.pdb #11/B PHE 30 CA -0.096 3.856
my_msa_consurf_7ckl.pdb #11/B HIS 47 CB my_msa_consurf_7ckl.pdb #11/B LYS 32 NZ -0.096 3.616
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD2 my_msa_consurf_7ckl.pdb #11/B CYS 50 CA -0.098 3.858
my_msa_consurf_7ckl.pdb #11/B TYR 48 CA my_msa_consurf_7ckl.pdb #11/B VAL 42 O -0.099 3.399
my_msa_consurf_7ckl.pdb #11/A MET 647 SD my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG1 -0.101 3.751
my_msa_consurf_7ckl.pdb #11/A HIS 1186 O my_msa_consurf_7ckl.pdb #11/A ARG 1380 CA -0.102 3.402
my_msa_consurf_7ckl.pdb #11/B CYS 67 CB my_msa_consurf_7ckl.pdb #11/B ASN 45 OD1 -0.103 3.403
my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 my_msa_consurf_7ckl.pdb #11/A GLY 1393 N -0.107 3.627
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/A TYR 649 CE2 -0.109 3.749
my_msa_consurf_7ckl.pdb #11/B TYR 48 CB my_msa_consurf_7ckl.pdb #11/B LEU 41 CB -0.110 3.870
my_msa_consurf_7ckl.pdb #11/B CYS 67 SG my_msa_consurf_7ckl.pdb #11/B HIS 47 CD2 -0.110 3.640
my_msa_consurf_7ckl.pdb #11/A ASN 1181 OD1 my_msa_consurf_7ckl.pdb #11/A HIS 1186 CG -0.119 3.149
my_msa_consurf_7ckl.pdb #11/A LEU 702 CG my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD2 -0.119 3.879
my_msa_consurf_7ckl.pdb #11/B CYS 50 N my_msa_consurf_7ckl.pdb #11/B CYS 31 SG -0.123 3.133
my_msa_consurf_7ckl.pdb #11/A VAL 685 CG1 my_msa_consurf_7ckl.pdb #11/A ARG 697 CB -0.125 3.885
my_msa_consurf_7ckl.pdb #11/B CYS 31 CB my_msa_consurf_7ckl.pdb #11/B CYS 50 N -0.127 3.647
my_msa_consurf_7ckl.pdb #11/A ARG 697 CD my_msa_consurf_7ckl.pdb #11/A VAL 685 CG1 -0.127 3.887
my_msa_consurf_7ckl.pdb #11/B GLN 29 C my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 -0.130 3.620
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG1 my_msa_consurf_7ckl.pdb #11/A TYR 653 N -0.130 3.650
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B LEU 49 CA -0.138 3.788
my_msa_consurf_7ckl.pdb #11/A PHE 698 CD2 my_msa_consurf_7ckl.pdb #11/A VAL 1391 CG1 -0.138 3.778
my_msa_consurf_7ckl.pdb #11/A ALA 1185 CB my_msa_consurf_7ckl.pdb #11/B PRO 28 CB -0.139 3.899
my_msa_consurf_7ckl.pdb #11/B LEU 57 CD1 my_msa_consurf_7ckl.pdb #11/B PRO 65 CG -0.140 3.900
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B LEU 49 CD1 -0.143 3.793
my_msa_consurf_7ckl.pdb #11/B ZN 102 ZN my_msa_consurf_7ckl.pdb #11/B HIS 47 CD2 -0.145 2.505
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 my_msa_consurf_7ckl.pdb #11/B PHE 30 N -0.146 3.666
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG1 my_msa_consurf_7ckl.pdb #11/A TYR 653 CA -0.148 3.908
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 CA -0.156 3.676
my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG2 my_msa_consurf_7ckl.pdb #11/A ALA 648 CB -0.165 3.925
my_msa_consurf_7ckl.pdb #11/B LYS 32 CE my_msa_consurf_7ckl.pdb #11/B HIS 47 CG -0.173 3.663
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B ILE 66 CD1 -0.174 3.934
my_msa_consurf_7ckl.pdb #11/A ASN 1181 O my_msa_consurf_7ckl.pdb #11/A HIS 1186 CB -0.176 3.476
my_msa_consurf_7ckl.pdb #11/A TYR 649 CE1 my_msa_consurf_7ckl.pdb #11/A LYS 263 CB -0.178 3.818
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 698 CD1 -0.182 3.822
my_msa_consurf_7ckl.pdb #11/B TRP 35 CD1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.183 3.703
my_msa_consurf_7ckl.pdb #11/B CYS 67 CB my_msa_consurf_7ckl.pdb #11/B ASN 45 ND2 -0.186 3.706
my_msa_consurf_7ckl.pdb #11/B LYS 32 CD my_msa_consurf_7ckl.pdb #11/B HIS 47 CG -0.187 3.677
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B LEU 41 CD2 -0.190 3.950
my_msa_consurf_7ckl.pdb #11/A ASP 652 OD2 my_msa_consurf_7ckl.pdb #11/A ARG 1380 CD -0.192 3.492
my_msa_consurf_7ckl.pdb #11/B LEU 41 CD1 my_msa_consurf_7ckl.pdb #11/B TYR 48 CB -0.194 3.954
my_msa_consurf_7ckl.pdb #11/A TRP 1392 NE1 my_msa_consurf_7ckl.pdb #11/B LYS 32 CE -0.196 3.716
my_msa_consurf_7ckl.pdb #11/A ILE 646 CB my_msa_consurf_7ckl.pdb #11/A ILE 701 CG2 -0.196 3.956
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/B PHE 36 CZ -0.204 3.844
my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD2 my_msa_consurf_7ckl.pdb #11/A LEU 702 CD2 -0.213 3.973
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A SER 692 N -0.213 3.493
my_msa_consurf_7ckl.pdb #11/A LYS 263 CB my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ -0.215 3.705
my_msa_consurf_7ckl.pdb #11/B LEU 49 O my_msa_consurf_7ckl.pdb #11/B VAL 42 N -0.215 2.875
my_msa_consurf_7ckl.pdb #11/B CYS 44 SG my_msa_consurf_7ckl.pdb #11/B LEU 71 CD2 -0.220 3.870
my_msa_consurf_7ckl.pdb #11/A VAL 1382 CG2 my_msa_consurf_7ckl.pdb #11/A PHE 698 CZ -0.222 3.862
my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 my_msa_consurf_7ckl.pdb #11/B LYS 32 CA -0.225 3.865
my_msa_consurf_7ckl.pdb #11/A LYS 263 CE my_msa_consurf_7ckl.pdb #11/B PHE 36 CE2 -0.233 3.873
my_msa_consurf_7ckl.pdb #11/B CYS 67 SG my_msa_consurf_7ckl.pdb #11/B ASN 45 OD1 -0.237 3.027
my_msa_consurf_7ckl.pdb #11/A VAL 685 O my_msa_consurf_7ckl.pdb #11/A ARG 697 CD -0.238 3.538
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 C -0.243 3.493
my_msa_consurf_7ckl.pdb #11/B LYS 32 CB my_msa_consurf_7ckl.pdb #11/B HIS 47 ND1 -0.243 3.763
my_msa_consurf_7ckl.pdb #11/A PHE 1381 CE1 my_msa_consurf_7ckl.pdb #11/B TRP 35 CB -0.243 3.883
my_msa_consurf_7ckl.pdb #11/A TYR 649 OH my_msa_consurf_7ckl.pdb #11/A LYS 263 CG -0.251 3.591
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B CYS 31 SG -0.254 3.904
my_msa_consurf_7ckl.pdb #11/B SER 33 CA my_msa_consurf_7ckl.pdb #11/A MET 693 CA -0.259 4.019
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A ILE 701 CB -0.262 4.022
my_msa_consurf_7ckl.pdb #11/A ALA 648 CA my_msa_consurf_7ckl.pdb #11/A VAL 1377 CG2 -0.270 4.030
my_msa_consurf_7ckl.pdb #11/A TYR 706 CE2 my_msa_consurf_7ckl.pdb #11/A LEU 1398 CD1 -0.273 3.913
my_msa_consurf_7ckl.pdb #11/A SER 651 CB my_msa_consurf_7ckl.pdb #11/A GLY 1379 CA -0.277 4.037
my_msa_consurf_7ckl.pdb #11/A ILE 1378 CA my_msa_consurf_7ckl.pdb #11/A SER 1188 O -0.280 3.580
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 my_msa_consurf_7ckl.pdb #11/A MET 694 CG -0.284 3.924
my_msa_consurf_7ckl.pdb #11/B CYS 31 CB my_msa_consurf_7ckl.pdb #11/B CYS 50 CB -0.285 4.045
my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ my_msa_consurf_7ckl.pdb #11/A LYS 263 CD -0.288 3.778
my_msa_consurf_7ckl.pdb #11/B SER 33 O my_msa_consurf_7ckl.pdb #11/A MET 694 CB -0.291 3.591
my_msa_consurf_7ckl.pdb #11/A LYS 263 CA my_msa_consurf_7ckl.pdb #11/A TYR 649 CE1 -0.291 3.931
my_msa_consurf_7ckl.pdb #11/B TRP 35 NE1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.300 3.700
my_msa_consurf_7ckl.pdb #11/A TYR 706 CE2 my_msa_consurf_7ckl.pdb #11/A PHE 1389 CE2 -0.301 3.821
my_msa_consurf_7ckl.pdb #11/A THR 695 CG2 my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 -0.303 3.793
my_msa_consurf_7ckl.pdb #11/B LYS 32 CG my_msa_consurf_7ckl.pdb #11/A TRP 1392 CH2 -0.305 3.945
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 50 SG -0.310 3.450
my_msa_consurf_7ckl.pdb #11/A ASN 1181 O my_msa_consurf_7ckl.pdb #11/A HIS 1186 CD2 -0.310 3.490
my_msa_consurf_7ckl.pdb #11/B CYS 44 SG my_msa_consurf_7ckl.pdb #11/B CYS 67 SG -0.311 3.451
my_msa_consurf_7ckl.pdb #11/B ASN 38 CB my_msa_consurf_7ckl.pdb #11/B PHE 30 CE1 -0.312 3.952
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B CYS 53 SG -0.318 3.458
my_msa_consurf_7ckl.pdb #11/B CYS 44 SG my_msa_consurf_7ckl.pdb #11/B CYS 64 SG -0.319 3.459
my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CA -0.329 4.089
my_msa_consurf_7ckl.pdb #11/A ARG 1380 CA my_msa_consurf_7ckl.pdb #11/A VAL 1187 CA -0.329 4.089
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE3 my_msa_consurf_7ckl.pdb #11/A PHE 1381 CD1 -0.333 3.853
my_msa_consurf_7ckl.pdb #11/B PHE 30 O my_msa_consurf_7ckl.pdb #11/B TYR 48 CB -0.340 3.640
my_msa_consurf_7ckl.pdb #11/A ASP 652 C my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 -0.342 3.832
my_msa_consurf_7ckl.pdb #11/A HIS 1186 CB my_msa_consurf_7ckl.pdb #11/A THR 1344 CG2 -0.344 4.104
my_msa_consurf_7ckl.pdb #11/B CYS 50 CB my_msa_consurf_7ckl.pdb #11/B GLU 37 CB -0.346 4.106
my_msa_consurf_7ckl.pdb #11/B CYS 64 CB my_msa_consurf_7ckl.pdb #11/B LEU 71 CG -0.347 4.107
my_msa_consurf_7ckl.pdb #11/B PHE 30 CD1 my_msa_consurf_7ckl.pdb #11/B ASN 38 CB -0.349 3.989
my_msa_consurf_7ckl.pdb #11/A LEU 702 CD2 my_msa_consurf_7ckl.pdb #11/A VAL 1396 CG2 -0.350 4.110
my_msa_consurf_7ckl.pdb #11/A TYR 649 CZ my_msa_consurf_7ckl.pdb #11/A LYS 263 CG -0.351 3.841
my_msa_consurf_7ckl.pdb #11/A ARG 1380 CZ my_msa_consurf_7ckl.pdb #11/B PHE 30 CZ -0.353 3.723
my_msa_consurf_7ckl.pdb #11/A MET 693 N my_msa_consurf_7ckl.pdb #11/B SER 33 O -0.358 3.018
my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 my_msa_consurf_7ckl.pdb #11/A VAL 690 CG2 -0.358 3.878
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A SER 651 C -0.359 3.849
my_msa_consurf_7ckl.pdb #11/B TRP 35 CE2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 -0.362 3.732
my_msa_consurf_7ckl.pdb #11/A VAL 690 CB my_msa_consurf_7ckl.pdb #11/A ARG 697 NH1 -0.364 3.884
my_msa_consurf_7ckl.pdb #11/A ILE 646 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 698 CE1 -0.366 4.006
my_msa_consurf_7ckl.pdb #11/A VAL 1182 CG1 my_msa_consurf_7ckl.pdb #11/A PHE 1381 O -0.369 3.669
my_msa_consurf_7ckl.pdb #11/B PHE 30 CE1 my_msa_consurf_7ckl.pdb #11/B ASN 38 ND2 -0.375 3.775
my_msa_consurf_7ckl.pdb #11/A PHE 1381 O my_msa_consurf_7ckl.pdb #11/A VAL 1391 CA -0.378 3.678
my_msa_consurf_7ckl.pdb #11/B TRP 35 CZ2 my_msa_consurf_7ckl.pdb #11/A TRP 1392 CE3 -0.378 3.898
my_msa_consurf_7ckl.pdb #11/B CYS 67 CB my_msa_consurf_7ckl.pdb #11/B ASN 45 CG -0.380 3.870
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG1 my_msa_consurf_7ckl.pdb #11/A ASP 652 CA -0.384 4.144
my_msa_consurf_7ckl.pdb #11/A VAL 261 CG2 my_msa_consurf_7ckl.pdb #11/A ASP 652 O -0.387 3.687
my_msa_consurf_7ckl.pdb #11/A MET 693 SD my_msa_consurf_7ckl.pdb #11/A CYS 606 CA -0.388 4.038
my_msa_consurf_7ckl.pdb #11/A GLU 1384 CB my_msa_consurf_7ckl.pdb #11/A PHE 1389 CE1 -0.391 4.031
my_msa_consurf_7ckl.pdb #11/A GLU 608 CG my_msa_consurf_7ckl.pdb #11/B LEU 56 CD2 -0.392 4.152
my_msa_consurf_7ckl.pdb #11/B LEU 41 CB my_msa_consurf_7ckl.pdb #11/B LEU 49 O -0.395 3.695
my_msa_consurf_7ckl.pdb #11/A VAL 685 O my_msa_consurf_7ckl.pdb #11/A VAL 690 CG1 -0.399 3.699
194 contacts
> select clear
> hide #13 models
> show #12 models
> undo
> select clear
> hide #13 models
> select #11/A
11138 atoms, 11335 bonds, 102 pseudobonds, 1416 residues, 4 models selected
> hide #12 models
> select subtract #11/A:1392
11124 atoms, 11318 bonds, 101 pseudobonds, 1415 residues, 5 models selected
> select subtract #11/A:1391
11117 atoms, 11311 bonds, 96 pseudobonds, 1414 residues, 5 models selected
> select subtract #11/A:1183
11111 atoms, 11304 bonds, 96 pseudobonds, 1413 residues, 5 models selected
> select subtract #11/A:1348
11101 atoms, 11292 bonds, 96 pseudobonds, 1412 residues, 5 models selected
> select subtract #11/A:607
11093 atoms, 11283 bonds, 96 pseudobonds, 1411 residues, 5 models selected
> select subtract #11/A:690
11086 atoms, 11275 bonds, 91 pseudobonds, 1410 residues, 5 models selected
> select subtract #11/A:691
11077 atoms, 11266 bonds, 91 pseudobonds, 1409 residues, 5 models selected
> select subtract #11/A:692
11071 atoms, 11260 bonds, 88 pseudobonds, 1408 residues, 5 models selected
> select subtract #11/A:693
11063 atoms, 11252 bonds, 85 pseudobonds, 1407 residues, 5 models selected
> select subtract #11/A:694
11055 atoms, 11244 bonds, 85 pseudobonds, 1406 residues, 5 models selected
> select subtract #11/A:695
11048 atoms, 11237 bonds, 85 pseudobonds, 1405 residues, 5 models selected
> select add #11/A:1391
11055 atoms, 11243 bonds, 85 pseudobonds, 1406 residues, 5 models selected
> select add #11/A:1392
11069 atoms, 11258 bonds, 85 pseudobonds, 1407 residues, 5 models selected
> select subtract #11/A:650
11062 atoms, 11250 bonds, 84 pseudobonds, 1406 residues, 5 models selected
> select subtract #11/A:1381
11051 atoms, 11237 bonds, 83 pseudobonds, 1405 residues, 5 models selected
> select subtract #11/A:1380
11040 atoms, 11226 bonds, 80 pseudobonds, 1404 residues, 5 models selected
> select add #11/A:1381
11051 atoms, 11237 bonds, 80 pseudobonds, 1405 residues, 5 models selected
> select subtract #11/A:1381
11040 atoms, 11226 bonds, 80 pseudobonds, 1404 residues, 5 models selected
> select subtract #11/A:1185
11035 atoms, 11220 bonds, 80 pseudobonds, 1403 residues, 5 models selected
> select subtract #11/A:698
11024 atoms, 11207 bonds, 77 pseudobonds, 1402 residues, 5 models selected
> select subtract #11/A:263
11015 atoms, 11197 bonds, 68 pseudobonds, 1401 residues, 5 models selected
> select subtract #11/A:1392
11001 atoms, 11182 bonds, 68 pseudobonds, 1400 residues, 5 models selected
> select add #11/A:1381
11012 atoms, 11193 bonds, 68 pseudobonds, 1401 residues, 5 models selected
> select add #11/A:1380
11023 atoms, 11203 bonds, 68 pseudobonds, 1402 residues, 5 models selected
> select subtract #11/A:1380
11012 atoms, 11193 bonds, 68 pseudobonds, 1401 residues, 5 models selected
> select subtract #11/A:1381
11001 atoms, 11182 bonds, 68 pseudobonds, 1400 residues, 5 models selected
> select subtract #11/A:1391
10994 atoms, 11176 bonds, 68 pseudobonds, 1399 residues, 5 models selected
> select add #11/A:1391
11001 atoms, 11182 bonds, 68 pseudobonds, 1400 residues, 5 models selected
> select subtract #11/A:1391
10994 atoms, 11176 bonds, 68 pseudobonds, 1399 residues, 5 models selected
> select add #11/A:1391
11001 atoms, 11182 bonds, 68 pseudobonds, 1400 residues, 5 models selected
> select subtract #11/A:1391
10994 atoms, 11176 bonds, 68 pseudobonds, 1399 residues, 5 models selected
> color (#!11 & sel) #008f00ff
> color (#!11 & sel) #945200ff
> color (#!11 & sel) #424242ff
> color (#!11 & sel) #5e5e5eff
> show #12 models
> hide #12 models
> select clear
> select #11/A
11138 atoms, 11335 bonds, 102 pseudobonds, 1416 residues, 4 models selected
> show sel surfaces
> transparency (#!11 & sel) 60
> select clear
> show #12 models
> ui tool show "Side View"
> hide #12 models
> close #13
Cell requested for row 0 is out of bounds for table with 0 rows! Resizing
table model.
> select #11 /A :263 #11 /A :605 #11 /A :607 #11 /A :608 #11 /A :650 #11 /A
> :651 #11 /A :690 #11 /A :691 #11 /A :692 #11 /A :693 #11 /A :694 #11 /A :695
> #11 /A :698 #11 /A :1183 #11 /A :1184 #11 /A :1185 #11 /A :1380 #11 /A :1381
> #11 /A :1391 #11 /A :1392 #11 /B :28 #11 /B :30 #11 /B :31 #11 /B :32 #11 /B
> :33 #11 /B :34 #11 /B :35 #11 /B :36 #11 /B :52 #11 /B :53 #11 /B :56 #11 /B
> :57 #11 /B :59 #11 /B :60 #11 /B :65
283 atoms, 278 bonds, 292 pseudobonds, 35 residues, 2 models selected
Cell requested for row 0 is out of bounds for table with 0 rows! Resizing
table model.
> ui tool show H-Bonds
> hbonds sel select true reveal true log true
The following atoms were skipped as donors/acceptors due to missing heavy-atom
bond partners: 7ckl_alphabundle_fit.pdb #6/A PRO 930 N;
my_msa_consurf_7ckl.pdb #11/A PRO 930 N
Finding intermodel H-bonds
Finding intramodel H-bonds
Constraints relaxed by 0.4 angstroms and 20 degrees
Models used:
1 bantou289.B99990001.pdb
2 bantou289.B99990002.pdb
3 bantou289.B99990003.pdb
4 bantou289.B99990004.pdb
5 bantou289.B99990005.pdb
6 7ckl_alphabundle_fit.pdb
7 7och_260-380_fit.pdb
8 7oe3_1520-1790_fit.pdb
9 7oea_fit.pdb
10 7ojn_430-620_fit.pdb
11 my_msa_consurf_7ckl.pdb
20 H-bonds
H-bonds (donor, acceptor, hydrogen, D..A dist, D-H..A dist):
my_msa_consurf_7ckl.pdb #11/A LEU 267 N my_msa_consurf_7ckl.pdb #11/A LYS 263 O no hydrogen 2.921 N/A
my_msa_consurf_7ckl.pdb #11/A ASN 607 ND2 my_msa_consurf_7ckl.pdb #11/B LEU 56 O no hydrogen 2.678 N/A
my_msa_consurf_7ckl.pdb #11/A SER 651 OG bantou289.B99990001.pdb #1/A GLU 1714 OE2 no hydrogen 3.464 N/A
my_msa_consurf_7ckl.pdb #11/A SER 651 OG my_msa_consurf_7ckl.pdb #11/A ALA 648 O no hydrogen 2.720 N/A
my_msa_consurf_7ckl.pdb #11/A LYS 691 NZ my_msa_consurf_7ckl.pdb #11/A GLU 688 O no hydrogen 2.794 N/A
my_msa_consurf_7ckl.pdb #11/A MET 694 N my_msa_consurf_7ckl.pdb #11/B SER 33 O no hydrogen 2.749 N/A
my_msa_consurf_7ckl.pdb #11/A THR 695 OG1 my_msa_consurf_7ckl.pdb #11/A ASN 696 OD1 no hydrogen 2.880 N/A
my_msa_consurf_7ckl.pdb #11/A ASN 696 N my_msa_consurf_7ckl.pdb #11/A MET 693 O no hydrogen 3.272 N/A
my_msa_consurf_7ckl.pdb #11/A PHE 698 N my_msa_consurf_7ckl.pdb #11/A MET 694 O no hydrogen 2.886 N/A
my_msa_consurf_7ckl.pdb #11/A LYS 699 N my_msa_consurf_7ckl.pdb #11/A THR 695 O no hydrogen 2.916 N/A
my_msa_consurf_7ckl.pdb #11/A LEU 702 N my_msa_consurf_7ckl.pdb #11/A PHE 698 O no hydrogen 2.875 N/A
my_msa_consurf_7ckl.pdb #11/A SER 1183 N my_msa_consurf_7ckl.pdb #11/A LYS 1179 O no hydrogen 2.924 N/A
my_msa_consurf_7ckl.pdb #11/A MET 1184 N my_msa_consurf_7ckl.pdb #11/A ASN 1181 O no hydrogen 3.291 N/A
my_msa_consurf_7ckl.pdb #11/A ALA 1185 N my_msa_consurf_7ckl.pdb #11/A VAL 1182 O no hydrogen 2.963 N/A
my_msa_consurf_7ckl.pdb #11/B CYS 31 SG my_msa_consurf_7ckl.pdb #11/B SER 33 OG no hydrogen 2.803 N/A
my_msa_consurf_7ckl.pdb #11/B TRP 35 N my_msa_consurf_7ckl.pdb #11/B CYS 31 O no hydrogen 3.055 N/A
my_msa_consurf_7ckl.pdb #11/B CYS 53 SG my_msa_consurf_7ckl.pdb #11/A LYS 691 O no hydrogen 3.662 N/A
my_msa_consurf_7ckl.pdb #11/B CYS 53 SG my_msa_consurf_7ckl.pdb #11/B SER 33 OG no hydrogen 2.489 N/A
my_msa_consurf_7ckl.pdb #11/B LEU 56 N my_msa_consurf_7ckl.pdb #11/B ASN 52 O no hydrogen 2.913 N/A
my_msa_consurf_7ckl.pdb #11/B LEU 57 N my_msa_consurf_7ckl.pdb #11/B CYS 53 O no hydrogen 2.881 N/A
20 hydrogen bonds found
> select clear
> save /Users/gabriele/Desktop/fig.png> width 4000 height 4000
> transparentBackground trueA
No known data format for file suffix '.png>'
> save /Users/gabriele/Desktop/fig.png width 4000 height 4000
> transparentBackground trueA
Invalid "transparentBackground" argument: Expected true or false (or 1 or 0)
> save /Users/gabriele/Desktop/fig.png width 4000 height 4000
> transparentBackground true
> select #11/B
383 atoms, 391 bonds, 13 pseudobonds, 51 residues, 3 models selected
> hide sel cartoons
> hide sel atoms
> select #11/B
383 atoms, 391 bonds, 13 pseudobonds, 51 residues, 3 models selected
> show sel atoms
> show sel cartoons
> hide sel atoms
===== Log before crash end =====
Log:
Startup Messages
---
note | available bundle cache has not been initialized yet
UCSF ChimeraX version: 1.9 (2024-12-11)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
OpenGL version: 4.1 Metal - 88.1
OpenGL renderer: Apple M3 Pro
OpenGL vendor: Apple
Python: 3.11.4
Locale: UTF-8
Qt version: PyQt6 6.7.1, Qt 6.7.1
Qt runtime version: 6.7.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: MacBook Pro
Model Identifier: Mac15,6
Model Number: Z1AX0038VD/A
Chip: Apple M3 Pro
Total Number of Cores: 11 (5 performance and 6 efficiency)
Memory: 18 GB
System Firmware Version: 10151.121.1
OS Loader Version: 10151.121.1
Software:
System Software Overview:
System Version: macOS 14.5 (23F79)
Kernel Version: Darwin 23.5.0
Time since boot: 5 days, 2 hours, 38 minutes
Graphics/Displays:
Apple M3 Pro:
Chipset Model: Apple M3 Pro
Type: GPU
Bus: Built-In
Total Number of Cores: 14
Vendor: Apple (0x106b)
Metal Support: Metal 3
Displays:
Color LCD:
Display Type: Built-in Liquid Retina XDR Display
Resolution: 3024 x 1964 Retina
Main Display: Yes
Mirror: Off
Online: Yes
Automatically Adjust Brightness: No
Connection Type: Internal
SyncMaster:
Resolution: 1920 x 1200 (WUXGA - Widescreen Ultra eXtended Graphics Array)
UI Looks like: 1920 x 1200 @ 60.00Hz
Mirror: Off
Online: Yes
Rotation: Supported
Installed Packages:
alabaster: 1.0.0
anyio: 4.7.0
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 3.0.0
auditwheel: 6.1.0
babel: 2.16.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 3.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4.post1
charset-normalizer: 3.4.0
ChimeraX-AddCharge: 1.5.18
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.16.1
ChimeraX-AlphaFold: 1.0.1
ChimeraX-AltlocExplorer: 1.1.2
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.58.8
ChimeraX-AtomicLibrary: 14.1.11
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 3.0.0
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.13.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.4.0
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.4
ChimeraX-ChangeChains: 1.1
ChimeraX-CheckWaters: 1.4
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.3
ChimeraX-ColorActions: 1.0.5
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.6
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.9
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.4
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.6
ChimeraX-DistMonitor: 1.4.2
ChimeraX-DockPrep: 1.1.3
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-FileHistory: 1.0.1
ChimeraX-FunctionKey: 1.0.1
ChimeraX-Geometry: 1.3
ChimeraX-gltf: 1.0
ChimeraX-Graphics: 1.4.1
ChimeraX-Hbonds: 2.5
ChimeraX-Help: 1.3
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.3
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-KVFinder: 1.2.1
ChimeraX-Label: 1.1.14
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.2
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.3
ChimeraX-MapData: 2.0
ChimeraX-MapEraser: 1.0.1
ChimeraX-MapFilter: 2.0.1
ChimeraX-MapFit: 2.0
ChimeraX-MapSeries: 2.1.1
ChimeraX-Markers: 1.0.1
ChimeraX-Mask: 1.0.2
ChimeraX-MatchMaker: 2.1.6
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.2
ChimeraX-MedicalToolbar: 1.1
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.2
ChimeraX-MMTF: 2.2
ChimeraX-ModelArchive: 1.0
ChimeraX-Modeller: 1.5.18
ChimeraX-ModelPanel: 1.5
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0.3
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-MutationScores: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.14
ChimeraX-OrthoPick: 1.0.1
ChimeraX-PDB: 2.7.6
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-PICKLUSTER: 0.5
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.2
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.6.2
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.3.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 4.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.2
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-Segmentations: 3.5.6
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.14
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.2.0
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-SimilarStructures: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.18.1
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.2.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.5
ChimeraX-TapeMeasure: 1.0
ChimeraX-TaskManager: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.2.3
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.41
ChimeraX-Umap: 1.0
ChimeraX-uniprot: 2.3.1
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.4
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-vrml: 1.0
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.4
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.2.2
contourpy: 1.3.1
cxservices: 1.2.3
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.9
decorator: 5.1.1
docutils: 0.21.2
executing: 2.1.0
filelock: 3.15.4
fonttools: 4.55.3
funcparserlib: 2.0.0a0
glfw: 2.8.0
grako: 3.16.5
h11: 0.14.0
h5py: 3.12.1
html2text: 2024.2.26
httpcore: 1.0.7
httpx: 0.28.1
idna: 3.10
ihm: 1.3
imagecodecs: 2024.6.1
imagesize: 1.4.1
ipykernel: 6.29.5
ipython: 8.26.0
ipywidgets: 8.1.5
jedi: 0.19.1
Jinja2: 3.1.4
jupyter_client: 8.6.2
jupyter_core: 5.7.2
jupyterlab_widgets: 3.0.13
kiwisolver: 1.4.7
line_profiler: 4.1.3
lxml: 5.2.2
lz4: 4.3.3
MarkupSafe: 3.0.2
matplotlib: 3.9.2
matplotlib-inline: 0.1.7
msgpack: 1.0.8
ndindex: 1.9.2
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.2
numpy: 1.26.4
openvr: 1.26.701
packaging: 23.2
ParmEd: 4.2.2
parso: 0.8.4
pep517: 0.13.1
pexpect: 4.9.0
pillow: 10.4.0
pip: 24.2
pkginfo: 1.11.1
platformdirs: 4.3.6
prompt_toolkit: 3.0.48
psutil: 6.0.0
ptyprocess: 0.7.0
pure_eval: 0.2.3
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pyelftools: 0.31
Pygments: 2.18.0
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.2.0
pyproject_hooks: 1.2.0
PyQt6-commercial: 6.7.1
PyQt6-Qt6: 6.7.3
PyQt6-WebEngine-commercial: 6.7.0
PyQt6-WebEngine-Qt6: 6.7.3
PyQt6-WebEngineSubwheel-Qt6: 6.7.3
PyQt6_sip: 13.8.0
python-dateutil: 2.9.0.post0
pytz: 2024.2
pyzmq: 26.2.0
qtconsole: 5.5.2
QtPy: 2.4.2
qtshim: 1.0
RandomWords: 0.4.0
requests: 2.32.3
scipy: 1.14.0
setuptools: 72.1.0
sfftk-rw: 0.8.1
six: 1.16.0
sniffio: 1.3.1
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.6
Sphinx: 8.0.2
sphinx-autodoc-typehints: 2.2.3
sphinxcontrib-applehelp: 2.0.0
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 2.0.0
sphinxcontrib-htmlhelp: 2.1.0
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 2.0.0
sphinxcontrib-serializinghtml: 2.0.0
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.10.1
tcia_utils: 1.5.1
tifffile: 2024.7.24
tinyarray: 1.2.4
tornado: 6.4.2
traitlets: 5.14.3
typing_extensions: 4.12.2
tzdata: 2024.2
urllib3: 2.2.3
wcwidth: 0.2.13
webcolors: 24.6.0
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.13
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