![[ChimeraX Issue Tracking System]](/trac/ChimeraX/chrome/site/ChimeraX-icon.svg){kind=icon}
Opened 2 months ago
Last modified 2 months ago
#18848 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-15.7-x86_64-i386-64bit
ChimeraX Version: 1.8 (2024-06-10 23:15:52 UTC)
Description
Last time you used ChimeraX it crashed.
Please describe steps that led to the crash here.
The program was not actively being used at the time, and had a session open with 2 models and 2 maps.
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{
"uptime" : 500000,
"procRole" : "Background",
"version" : 2,
"userID" : 504,
"deployVersion" : 210,
"modelCode" : "Mac15,3",
"coalitionID" : 18560,
"osVersion" : {
"train" : "macOS 15.6.1",
"build" : "24G90",
"releaseType" : "User"
},
"captureTime" : "2025-09-22 17:07:26.2730 +0100",
"codeSigningMonitor" : 1,
"incident" : "673C16C5-77BF-43D2-80C4-CBB502108485",
"pid" : 75613,
"translated" : true,
"cpuType" : "X86-64",
"roots_installed" : 0,
"bug_type" : "309",
"procLaunch" : "2025-09-22 13:43:56.4820 +0100",
"procStartAbsTime" : 11888325616382,
"procExitAbsTime" : 12181349391162,
"procName" : "ChimeraX",
"procPath" : "\/Applications\/ChimeraX-1.8.app\/Contents\/MacOS\/ChimeraX",
"bundleInfo" : {"CFBundleShortVersionString":"1.8.0","CFBundleVersion":"1.8.0.0","CFBundleIdentifier":"edu.ucsf.cgl.ChimeraX"},
"storeInfo" : {"deviceIdentifierForVendor":"1471129C-D77B-5A9E-8DC6-7F9ABAB8E310","thirdParty":true},
"parentProc" : "launchd",
"parentPid" : 1,
"coalitionName" : "edu.ucsf.cgl.ChimeraX",
"crashReporterKey" : "6A59DD4E-FB92-DFCC-0F73-D34E1FCE92E1",
"appleIntelligenceStatus" : {"state":"available"},
"codeSigningID" : "edu.ucsf.cgl.ChimeraX",
"codeSigningTeamID" : "LWV8X224YF",
"codeSigningFlags" : 570491649,
"codeSigningValidationCategory" : 6,
"codeSigningTrustLevel" : 4294967295,
"codeSigningAuxiliaryInfo" : 0,
"bootSessionUUID" : "6CB47865-232E-409E-8DBA-648E076600B4",
"wakeTime" : 30477,
"sleepWakeUUID" : "5110E061-1D88-49F1-BEAD-D3D4FECABCC7",
"sip" : "enabled",
"exception" : {"codes":"0x0000000000000002, 0x0000000000000000","rawCodes":[2,0],"type":"EXC_BREAKPOINT","signal":"SIGTRAP"},
"termination" : {"flags":0,"code":5,"namespace":"SIGNAL","indicator":"Trace\/BPT trap: 5","byProc":"exc handler","byPid":75613},
"os_fault" : {"process":"ChimeraX"},
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},
"reportNotes" : [
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]
}
===== Log before crash start =====
UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX sessions/Just
> N_BTD.cxs"
Opened nano_BTD_denmod_map_.ccp4 as #3, grid size 185,185,199, pixel 0.74,
shown at level 1.54, step 1, values float32
Log from Thu Sep 18 15:16:59 2025UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX
> sessions/AM_BTD_nano session.cxs"
Opened AM237_nano_denmod_map.ccp4 as #2, grid size 167,167,197, pixel 0.74,
shown at level 1.4, step 1, values float32
Opened nano_BTD_denmod_map_.ccp4 as #3, grid size 185,185,199, pixel 0.74,
shown at level 1.54, step 1, values float32
Log from Wed Aug 27 11:40:08 2025UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
> N/Ref_starting_model_real_space_refined_001.pdb"
Chain information for Ref_starting_model_real_space_refined_001.pdb #1
---
Chain | Description
A B C D | No description available
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
> N/AM237_nano_denmod_map.ccp4"
Opened AM237_nano_denmod_map.ccp4 as #2, grid size 167,167,197, pixel 0.74,
shown at level 4.75, step 1, values float32
> close #1
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
> N/NanoAM237_addingligands_AM_2.pdb"
Summary of feedback from opening
/Users/bs18klrh/Library/CloudStorage/OneDrive-
UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
N/NanoAM237_addingligands_AM_2.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
16783 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASN (500 )
Cannot find LINK/SSBOND residue TRP (315 )
Cannot find LINK/SSBOND residue ASN (500 )
Cannot find LINK/SSBOND residue ZN (751 )
Cannot find LINK/SSBOND residue ZN (751 )
18 messages similar to the above omitted
Chain information for NanoAM237_addingligands_AM_2.pdb #1
---
Chain | Description
A B C D | No description available
> volume #2 level 1.462
> set bgColor white
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/BTD
> N/BTDNano_Model_1_ligands_010.pdb"
Summary of feedback from opening
/Users/bs18klrh/Library/CloudStorage/OneDrive-
UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/BTD
N/BTDNano_Model_1_ligands_010.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
17089 messages similar to the above omitted
Chain information for BTDNano_Model_1_ligands_010.pdb #3
---
Chain | Description
A B C D | No description available
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/BTD
> N/BTDNano_Model_1_ligands.pdb"
Summary of feedback from opening
/Users/bs18klrh/Library/CloudStorage/OneDrive-
UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/BTD
N/BTDNano_Model_1_ligands.pdb
---
warning | Cannot find LINK/SSBOND residue Y01 (798 )
Chain information for BTDNano_Model_1_ligands.pdb #4
---
Chain | Description
A B C D | No description available
> hide #!2 models
> hide #!1 models
> hide #!3 models
> hide #!4 models
> show #!2 models
> show #!1 models
> volume #2 level 1.13
> open
> /Users/bs18klrh/Desktop/BTD_nano/RealSpaceRefine_11/BTDNano_Model_1_ligands_real_space_refined_010-coot-0_real_space_refined_011.pdb
Chain information for
BTDNano_Model_1_ligands_real_space_refined_010-coot-0_real_space_refined_011.pdb
#5
---
Chain | Description
A B C D | No description available
> hide #!2 models
> hide #!1 models
> dssp
> open
> /Users/bs18klrh/Desktop/BTD_nano/RealSpaceRefine_10/BTDNano_Model_1_ligands_real_space_refined_010.pdb
Chain information for BTDNano_Model_1_ligands_real_space_refined_010.pdb #6
---
Chain | Description
A B C D | No description available
> dssp
> hide #!5 models
> show #!5 models
> hide #!6 models
> open
> /Users/bs18klrh/Desktop/BTD_nano/BTDNano_Model_1_ligands_real_space_refined_010-coot-1.pdb
Summary of feedback from opening
/Users/bs18klrh/Desktop/BTD_nano/BTDNano_Model_1_ligands_real_space_refined_010-coot-1.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
17089 messages similar to the above omitted
Chain information for
BTDNano_Model_1_ligands_real_space_refined_010-coot-1.pdb #7
---
Chain | Description
A B C D | No description available
> hide #!5 models
> dssp
> hide #!7 models
> open
> /Users/bs18klrh/Desktop/BTD_nano/RealSpaceRefine_12/BTDNano_Model_1_ligands_real_space_refined_010-coot-1_real_space_refined_012.pdb
Chain information for
BTDNano_Model_1_ligands_real_space_refined_010-coot-1_real_space_refined_012.pdb
#8
---
Chain | Description
A B C D | No description available
> dssp
> close #3-7
> show #!1 models
> open
> /Users/bs18klrh/Desktop/BTD_nano/ResolveCryoEM_7/nano_BTD_denmod_map_.ccp4
Opened nano_BTD_denmod_map_.ccp4 as #3, grid size 185,185,199, pixel 0.74,
shown at level 4.9, step 1, values float32
> close #8
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/BTD
> N/BTDNano_Model_2.pdb"
Chain information for BTDNano_Model_2.pdb #4
---
Chain | Description
A B C D | No description available
> select add #3
2 models selected
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 5 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #3,-0.90341,0.42462,-0.059581,292.24,0.42708,0.90346,-0.036842,-55.125,0.038186,-0.058729,-0.99754,410.06,#4,-0.90341,0.42462,-0.059581,292.24,0.42708,0.90346,-0.036842,-55.125,0.038186,-0.058729,-0.99754,410.06
> ui mousemode right "translate selected models"
> view matrix models
> #3,-0.90341,0.42462,-0.059581,289.96,0.42708,0.90346,-0.036842,-53.26,0.038186,-0.058729,-0.99754,383.45,#4,-0.90341,0.42462,-0.059581,289.96,0.42708,0.90346,-0.036842,-53.26,0.038186,-0.058729,-0.99754,383.45
> view matrix models
> #3,-0.90341,0.42462,-0.059581,290.08,0.42708,0.90346,-0.036842,-56.025,0.038186,-0.058729,-0.99754,383.68,#4,-0.90341,0.42462,-0.059581,290.08,0.42708,0.90346,-0.036842,-56.025,0.038186,-0.058729,-0.99754,383.68
> view matrix models
> #3,-0.90341,0.42462,-0.059581,290.96,0.42708,0.90346,-0.036842,-52.864,0.038186,-0.058729,-0.99754,385.21,#4,-0.90341,0.42462,-0.059581,290.96,0.42708,0.90346,-0.036842,-52.864,0.038186,-0.058729,-0.99754,385.21
> view matrix models
> #3,-0.90341,0.42462,-0.059581,290.78,0.42708,0.90346,-0.036842,-54.831,0.038186,-0.058729,-0.99754,385.2,#4,-0.90341,0.42462,-0.059581,290.78,0.42708,0.90346,-0.036842,-54.831,0.038186,-0.058729,-0.99754,385.2
> view matrix models
> #3,-0.90341,0.42462,-0.059581,292.56,0.42708,0.90346,-0.036842,-54.636,0.038186,-0.058729,-0.99754,385.17,#4,-0.90341,0.42462,-0.059581,292.56,0.42708,0.90346,-0.036842,-54.636,0.038186,-0.058729,-0.99754,385.17
> select subtract #3
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> ui tool show "Fit in Map"
> show #!2 models
> fitmap #4 inMap #2
Fit molecule BTDNano_Model_2.pdb (#4) to map AM237_nano_denmod_map.ccp4 (#2)
using 22792 atoms
average map value = 3.157, steps = 92
shifted from previous position = 2.1
rotated from previous position = 4.14 degrees
atoms outside contour = 4544, contour level = 1.1304
Position of BTDNano_Model_2.pdb (#4) relative to AM237_nano_denmod_map.ccp4
(#2) coordinates:
Matrix rotation and translation
-0.89703356 0.44196244 0.00003946 275.64068818
0.44196244 0.89703355 0.00004569 -64.22831046
-0.00001520 0.00005842 -1.00000000 379.79764870
Axis 0.22689971 0.97391813 0.00003005
Axis point 145.30491249 0.00000000 189.89782990
Rotation angle (degrees) 179.99839228
Shift along axis 0.00109055
> fitmap #4 inMap #2
Fit molecule BTDNano_Model_2.pdb (#4) to map AM237_nano_denmod_map.ccp4 (#2)
using 22792 atoms
average map value = 3.157, steps = 40
shifted from previous position = 0.0132
rotated from previous position = 0.00613 degrees
atoms outside contour = 4549, contour level = 1.1304
Position of BTDNano_Model_2.pdb (#4) relative to AM237_nano_denmod_map.ccp4
(#2) coordinates:
Matrix rotation and translation
-0.89703071 0.44196822 -0.00006693 275.65955990
0.44196822 0.89703071 0.00003607 -64.22646289
0.00007598 0.00000278 -1.00000000 379.80412711
Axis -0.22690207 -0.97391758 -0.00000870
Axis point 145.30432644 0.00000000 189.90754198
Rotation angle (degrees) 179.99579636
Shift along axis 0.00025303
> fitmap #3 inMap #2
Fit map nano_BTD_denmod_map_.ccp4 in map AM237_nano_denmod_map.ccp4 using
68086 points
correlation = 0.9806, correlation about mean = 0.6791, overlap = 2.264e+06
steps = 84, shift = 2.39, angle = 4.14 degrees
Position of nano_BTD_denmod_map_.ccp4 (#3) relative to
AM237_nano_denmod_map.ccp4 (#2) coordinates:
Matrix rotation and translation
-0.89717553 0.44167415 0.00006373 275.71792953
0.44167416 0.89717553 0.00004592 -64.20037306
-0.00003690 0.00006935 -1.00000000 379.82753939
Axis 0.22674297 0.97395463 0.00003140
Axis point 145.33713347 0.00000000 189.91114835
Rotation angle (degrees) 179.99704004
Shift along axis 0.00077624
> volume #3 level 1.424
> hide #!2 models
> hide #!3 models
> show atoms
> hide atoms
> dssp
> hide #!4 models
> show #!2 models
> hide #!2 models
> select ::name="AM2"
148 atoms, 160 bonds, 4 residues, 1 model selected
> select
> ::name="AM2"::name="CA"::name="POV"::name="PTY"::name="UNL"::name="Y01"::name="YZY"::name="ZN"
1520 atoms, 1536 bonds, 52 residues, 2 models selected
> show (#!1 & sel) target ab
> select clear
> select #1/A
5596 atoms, 5728 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!1 & sel) #d783ffff
> select #1/B
5596 atoms, 5728 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!1 & sel) #7a81ffff
> color (#!1 & sel) #d783ffff
> select #1/C
5596 atoms, 5728 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!1 & sel) #ca8df8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c98df8ff
> color (#!1 & sel) #c88df8ff
> color (#!1 & sel) #c78ff8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c690f8ff
> color (#!1 & sel) #c590f8ff
> color (#!1 & sel) #c490f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c390f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c190f8ff
> color (#!1 & sel) #bf90f8ff
> color (#!1 & sel) #be90f8ff
> color (#!1 & sel) #bc90f8ff
> color (#!1 & sel) #ba8ff8ff
> color (#!1 & sel) #b88ff8ff
> color (#!1 & sel) #b790f8ff
> color (#!1 & sel) #b590f8ff
> color (#!1 & sel) #b490f8ff
> color (#!1 & sel) #b391f8ff
> color (#!1 & sel) #b491f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #b695f8ff
> color (#!1 & sel) #b494f8ff
> color (#!1 & sel) #b295f8ff
> color (#!1 & sel) #b097f8ff
> color (#!1 & sel) #ae98f8ff
> color (#!1 & sel) #ac98f8ff
> color (#!1 & sel) #a898f8ff
> color (#!1 & sel) #a598f8ff
> color (#!1 & sel) #a298f8ff
> color (#!1 & sel) #a197f8ff
> color (#!1 & sel) #9e97f8ff
> color (#!1 & sel) #9c97f8ff
> color (#!1 & sel) #9a98f8ff
> color (#!1 & sel) #9898f8ff
> color (#!1 & sel) #9899f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #999af8ff
> color (#!1 & sel) #b0a1f8ff
> color (#!1 & sel) #b8a5f8ff
> color (#!1 & sel) #bfa8f8ff
> color (#!1 & sel) #c4aaf8ff
> color (#!1 & sel) #c7abf8ff
> color (#!1 & sel) #ccacf8ff
> color (#!1 & sel) #d0adf8ff
> color (#!1 & sel) #d2adf8ff
> color (#!1 & sel) #d5adf8ff
> color (#!1 & sel) #d7adf8ff
> color (#!1 & sel) #daaef8ff
> color (#!1 & sel) #dcaef8ff
> color (#!1 & sel) #ddaef8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #e0aef8ff
> color (#!1 & sel) #e0aff8ff
> color (#!1 & sel) #e1aff8ff
> color (#!1 & sel) #e1b1f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #e0b1f8ff
> color (#!1 & sel) #dfb0f8ff
> color (#!1 & sel) #d9a7f8ff
> color (#!1 & sel) #d6a2f8ff
> color (#!1 & sel) #d5a1f8ff
> color (#!1 & sel) #d5a0f8ff
> color (#!1 & sel) #d59ff8ff
> color (#!1 & sel) #d49ef8ff
> color (#!1 & sel) #d39cf8ff
> color (#!1 & sel) #d29bf8ff
> color (#!1 & sel) #d199f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #d098f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #d097f8ff
> color (#!1 & sel) #cf97f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #d09cf8ff
> color (#!1 & sel) #d19ff8ff
> color (#!1 & sel) #d1a2f8ff
> color (#!1 & sel) #d1a5f8ff
> color (#!1 & sel) #d1a9f8ff
> color (#!1 & sel) #d1acf8ff
> color (#!1 & sel) #d1adf8ff
> color (#!1 & sel) #d1aef8ff
> color (#!1 & sel) #d1aff8ff
> color (#!1 & sel) #d0aef8ff
> color (#!1 & sel) #cfacf8ff
> color (#!1 & sel) #cea8f8ff
> color (#!1 & sel) #cea7f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cea6f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cea5f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cfa5f8ff
> color (#!1 & sel) #cfa7f8ff
> color (#!1 & sel) #cfa8f8ff
> color (#!1 & sel) #cfa9f8ff
> color (#!1 & sel) #cfaaf8ff
> color (#!1 & sel) #cfabf8ff
> color (#!1 & sel) #cfacf8ff
> color (#!1 & sel) #cfadf8ff
> color (#!1 & sel) #cfaef8ff
> color (#!1 & sel) #cfaff8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cfb0f8ff
> color (#!1 & sel) #ceb0f8ff
> color (#!1 & sel) #cfb1f8ff
> color (#!1 & sel) #cfb2f8ff
> color (#!1 & sel) #ceb2f8ff
> color (#!1 & sel) #cfb3f8ff
> color (#!1 & sel) #ceb4f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cdb4f8ff
> color (#!1 & sel) #cbb3f8ff
> color (#!1 & sel) #cab1f8ff
> color (#!1 & sel) #c9b0f8ff
> color (#!1 & sel) #c8aef8ff
> color (#!1 & sel) #c8adf8ff
> color (#!1 & sel) #c8abf8ff
> color (#!1 & sel) #c8aaf8ff
> color (#!1 & sel) #c8a9f8ff
> color (#!1 & sel) #c8a8f8ff
> color (#!1 & sel) #c8a6f8ff
> color (#!1 & sel) #c7a6f8ff
> color (#!1 & sel) #c7a5f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c7a4f8ff
> color (#!1 & sel) #c7a3f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c7a2f8ff
> color (#!1 & sel) #c7a1f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c7a0f8ff
> color (#!1 & sel) #c4a5f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c4a6f8ff
> color (#!1 & sel) #c4a7f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c5aaf8ff
> color (#!1 & sel) #c6abf8ff
> color (#!1 & sel) #c7aef8ff
> color (#!1 & sel) #c8b0f8ff
> color (#!1 & sel) #c9b2f8ff
> color (#!1 & sel) #cab4f8ff
> color (#!1 & sel) #cbb6f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cbb7f8ff
> color (#!1 & sel) #cbb8f8ff
> color (#!1 & sel) #ccb9f8ff
> color (#!1 & sel) #ccbbf8ff
> color (#!1 & sel) #ccbcf8ff
> color (#!1 & sel) #ccbef8ff
> color (#!1 & sel) #ccbdf8ff
> color (#!1 & sel) #cbb7f8ff
> color (#!1 & sel) #cab3f8ff
> color (#!1 & sel) #cab1f8ff
> color (#!1 & sel) #c9aff8ff
> color (#!1 & sel) #c9aef8ff
> color (#!1 & sel) #c8aaf8ff
> color (#!1 & sel) #c7a9f8ff
> color (#!1 & sel) #c6a7f8ff
> color (#!1 & sel) #c6a5f8ff
> color (#!1 & sel) #c5a3f8ff
> color (#!1 & sel) #c5a1f8ff
> color (#!1 & sel) #c49ff8ff
> color (#!1 & sel) #c49df8ff
> color (#!1 & sel) #c49cf8ff
> color (#!1 & sel) #c39cf8ff
> color (#!1 & sel) #c49bf8ff
> color (#!1 & sel) #c49cf8ff
> color (#!1 & sel) #c9a6f8ff
> color (#!1 & sel) #caabf8ff
> color (#!1 & sel) #cbadf8ff
> color (#!1 & sel) #cbaff8ff
> color (#!1 & sel) #cbb1f8ff
> color (#!1 & sel) #cbb3f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #ccb4f8ff
> select #1/D
5596 atoms, 5728 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!1 & sel) #ccb4f8ff
> select add #1
22384 atoms, 22912 bonds, 12 pseudobonds, 2696 residues, 2 models selected
> select subtract #1
Nothing selected
> select ::name="AM2"
148 atoms, 160 bonds, 4 residues, 1 model selected
> color sel #ff2f92ff
> select add #1
22384 atoms, 22912 bonds, 12 pseudobonds, 2696 residues, 2 models selected
> select subtract #1
Nothing selected
> color #1 byhetero
> color #2 #d783ffff models
> show #!2 models
> color #2 #f9caebff models
> color #2 #f9caeb66 models
> color #2 #c7caf566 models
> show #!1 atoms
> lighting soft
> ui tool show "Side View"
> lighting simple
> color #2 #f4cbe666 models
> color #2 #d5bdf466 models
> hide #!1 atoms
> show #!3 models
> show #!4 models
> hide #!2 models
> hide #!1 models
> hide #!3 models
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #0096ffff
> color (#!4 & sel) #76d6ffff
> color (#!4 & sel) #0096ffff
> color (#!4 & sel) #3d93f7ff
> color (#!4 & sel) #3f94f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4196f7ff
> color (#!4 & sel) #4498f7ff
> color (#!4 & sel) #469bf7ff
> color (#!4 & sel) #4a9ff7ff
> color (#!4 & sel) #4ca4f7ff
> color (#!4 & sel) #4ea8f7ff
> color (#!4 & sel) #50acf7ff
> color (#!4 & sel) #51adf7ff
> color (#!4 & sel) #52adf7ff
> color (#!4 & sel) #53aff7ff
> color (#!4 & sel) #54b0f7ff
> color (#!4 & sel) #56b2f7ff
> color (#!4 & sel) #56b3f7ff
> color (#!4 & sel) #58b4f7ff
> color (#!4 & sel) #5ab6f7ff
> color (#!4 & sel) #5bb7f7ff
> color (#!4 & sel) #5cb9f7ff
> color (#!4 & sel) #5dbaf7ff
> color (#!4 & sel) #5ebbf7ff
> color (#!4 & sel) #5ebcf7ff
> color (#!4 & sel) #61bff7ff
> color (#!4 & sel) #62c0f7ff
> color (#!4 & sel) #63c0f7ff
> color (#!4 & sel) #64c0f7ff
> color (#!4 & sel) #65c0f7ff
> color (#!4 & sel) #64bff7ff
> color (#!4 & sel) #60bcf7ff
> color (#!4 & sel) #5fbaf7ff
> color (#!4 & sel) #5eb8f7ff
> color (#!4 & sel) #5cb7f7ff
> color (#!4 & sel) #5cb6f7ff
> color (#!4 & sel) #5cb5f7ff
> color (#!4 & sel) #5bb4f7ff
> color (#!4 & sel) #5bb3f7ff
> color (#!4 & sel) #5ab2f7ff
> color (#!4 & sel) #59aff7ff
> color (#!4 & sel) #57acf7ff
> color (#!4 & sel) #55a8f7ff
> color (#!4 & sel) #55a7f7ff
> color (#!4 & sel) #53a4f7ff
> color (#!4 & sel) #519ff7ff
> color (#!4 & sel) #4e96f7ff
> color (#!4 & sel) #4e91f7ff
> color (#!4 & sel) #4e90f7ff
> color (#!4 & sel) #4e8ff7ff
> color (#!4 & sel) #4e8cf7ff
> color (#!4 & sel) #4d8bf7ff
> color (#!4 & sel) #4d89f7ff
> color (#!4 & sel) #4d87f7ff
> color (#!4 & sel) #4d86f7ff
> color (#!4 & sel) #4c84f7ff
> color (#!4 & sel) #4c82f7ff
> color (#!4 & sel) #4a7ff7ff
> color (#!4 & sel) #4a7df7ff
> color (#!4 & sel) #497df7ff
> color (#!4 & sel) #487bf7ff
> color (#!4 & sel) #477af7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4477f7ff
> color (#!4 & sel) #4273f7ff
> color (#!4 & sel) #406df7ff
> color (#!4 & sel) #3e67f7ff
> color (#!4 & sel) #3d60f7ff
> color (#!4 & sel) #3d5cf7ff
> color (#!4 & sel) #3d59f7ff
> color (#!4 & sel) #3d56f7ff
> color (#!4 & sel) #3d55f7ff
> color (#!4 & sel) #3d54f7ff
> color (#!4 & sel) #3c54f7ff
> color (#!4 & sel) #3b52f7ff
> color (#!4 & sel) #3c50f7ff
> color (#!4 & sel) #3e4ef7ff
> color (#!4 & sel) #424df7ff
> color (#!4 & sel) #434cf7ff
> color (#!4 & sel) #444bf7ff
> color (#!4 & sel) #454cf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #454df7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #434df7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4352f7ff
> color (#!4 & sel) #496af7ff
> color (#!4 & sel) #4d79f7ff
> color (#!4 & sel) #5286f7ff
> color (#!4 & sel) #5790f7ff
> color (#!4 & sel) #5995f7ff
> color (#!4 & sel) #5a98f7ff
> color (#!4 & sel) #5b9af7ff
> color (#!4 & sel) #5b9bf7ff
> color (#!4 & sel) #5a9bf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #589ef7ff
> color (#!4 & sel) #56a0f7ff
> color (#!4 & sel) #55a1f7ff
> color (#!4 & sel) #54a1f7ff
> color (#!4 & sel) #51a1f7ff
> color (#!4 & sel) #4da2f7ff
> color (#!4 & sel) #49a2f7ff
> color (#!4 & sel) #47a3f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #46a3f7ff
> color (#!4 & sel) #46a4f7ff
> color (#!4 & sel) #46a5f7ff
> color (#!4 & sel) #46a6f7ff
> color (#!4 & sel) #46a5f7ff
> color (#!4 & sel) #4aa0f7ff
> color (#!4 & sel) #528df7ff
> color (#!4 & sel) #5481f7ff
> color (#!4 & sel) #5377f7ff
> color (#!4 & sel) #516ff7ff
> color (#!4 & sel) #506af7ff
> color (#!4 & sel) #526df7ff
> color (#!4 & sel) #5f83f7ff
> color (#!4 & sel) #668ff7ff
> color (#!4 & sel) #6b95f7ff
> color (#!4 & sel) #6e98f7ff
> color (#!4 & sel) #709af7ff
> color (#!4 & sel) #729af7ff
> color (#!4 & sel) #7398f7ff
> color (#!4 & sel) #7496f7ff
> color (#!4 & sel) #7492f7ff
> color (#!4 & sel) #738ff7ff
> color (#!4 & sel) #728cf7ff
> color (#!4 & sel) #728bf7ff
> color (#!4 & sel) #728af7ff
> color (#!4 & sel) #7189f7ff
> color (#!4 & sel) #7188f7ff
> color (#!4 & sel) #7187f7ff
> color (#!4 & sel) #7186f7ff
> color (#!4 & sel) #7084f7ff
> color (#!4 & sel) #6f81f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6e80f7ff
> color (#!4 & sel) #6e7ff7ff
> color (#!4 & sel) #6d7ef7ff
> color (#!4 & sel) #6d7df7ff
> color (#!4 & sel) #6b7bf7ff
> color (#!4 & sel) #6b7af7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6a78f7ff
> color (#!4 & sel) #6977f7ff
> color (#!4 & sel) #6874f7ff
> color (#!4 & sel) #6873f7ff
> color (#!4 & sel) #6772f7ff
> color (#!4 & sel) #656df7ff
> color (#!4 & sel) #656cf7ff
> color (#!4 & sel) #646bf7ff
> color (#!4 & sel) #636bf7ff
> color (#!4 & sel) #636af7ff
> color (#!4 & sel) #6267f7ff
> color (#!4 & sel) #6163f7ff
> color (#!4 & sel) #5f61f7ff
> color (#!4 & sel) #5e5ff7ff
> color (#!4 & sel) #5e5ef7ff
> color (#!4 & sel) #5d5df7ff
> color (#!4 & sel) #5d5cf7ff
> color (#!4 & sel) #5e5cf7ff
> color (#!4 & sel) #5e5bf7ff
> select #4/B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #5e5bf7ff
> color (#!4 & sel) #5e64f7ff
> color (#!4 & sel) #5e6ff7ff
> color (#!4 & sel) #5e70f7ff
> color (#!4 & sel) #5e72f7ff
> color (#!4 & sel) #5e80f7ff
> color (#!4 & sel) #5e8af7ff
> color (#!4 & sel) #5e8ef7ff
> color (#!4 & sel) #5e90f7ff
> color (#!4 & sel) #5e92f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5e8ef7ff
> color (#!4 & sel) #5e82f7ff
> color (#!4 & sel) #5e73f7ff
> color (#!4 & sel) #5e6ff7ff
> color (#!4 & sel) #5e6cf7ff
> color (#!4 & sel) #5e66f7ff
> color (#!4 & sel) #5e60f7ff
> color (#!4 & sel) #5e5cf7ff
> color (#!4 & sel) #5e5af7ff
> color (#!4 & sel) #5e56f7ff
> color (#!4 & sel) #5e54f7ff
> color (#!4 & sel) #5e51f7ff
> color (#!4 & sel) #5e4cf7ff
> color (#!4 & sel) #5e4af7ff
> color (#!4 & sel) #5e47f7ff
> color (#!4 & sel) #5e45f7ff
> color (#!4 & sel) #5e43f7ff
> color (#!4 & sel) #5e5cf7ff
> color (#!4 & sel) #5e75f7ff
> color (#!4 & sel) #5e76f7ff
> color (#!4 & sel) #5e6bf7ff
> color (#!4 & sel) #5e65f7ff
> color (#!4 & sel) #5e62f7ff
> color (#!4 & sel) #5e61f7ff
> color (#!4 & sel) #5e60f7ff
> color (#!4 & sel) #5e61f7ff
> color (#!4 & sel) #5e6bf7ff
> color (#!4 & sel) #5e71f7ff
> color (#!4 & sel) #5e74f7ff
> color (#!4 & sel) #5e76f7ff
> color (#!4 & sel) #5e79f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5e7bf7ff
> color (#!4 & sel) #5e7df7ff
> color (#!4 & sel) #5e7ff7ff
> color (#!4 & sel) #5e80f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5d80f7ff
> color (#!4 & sel) #5b80f7ff
> color (#!4 & sel) #5880f7ff
> color (#!4 & sel) #5680f7ff
> color (#!4 & sel) #5480f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5380f7ff
> color (#!4 & sel) #5180f7ff
> color (#!4 & sel) #4f80f7ff
> color (#!4 & sel) #4d80f7ff
> color (#!4 & sel) #4c80f7ff
> color (#!4 & sel) #4b80f7ff
> color (#!4 & sel) #4a80f7ff
> color (#!4 & sel) #4b80f7ff
> color (#!4 & sel) #6780f7ff
> color (#!4 & sel) #6b80f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #7180f7ff
> color (#!4 & sel) #7680f7ff
> color (#!4 & sel) #7d80f7ff
> color (#!4 & sel) #8080f7ff
> color (#!4 & sel) #8880f7ff
> color (#!4 & sel) #8b80f7ff
> color (#!4 & sel) #8c80f7ff
> color (#!4 & sel) #8d80f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #8c80f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #8b80f7ff
> color (#!4 & sel) #8a80f7ff
> color (#!4 & sel) #8680f7ff
> color (#!4 & sel) #7e80f7ff
> color (#!4 & sel) #7180f7ff
> color (#!4 & sel) #6c80f7ff
> color (#!4 & sel) #6480f7ff
> color (#!4 & sel) #6180f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6080f7ff
> color (#!4 & sel) #5f80f7ff
> color (#!4 & sel) #5d80f7ff
> color (#!4 & sel) #5b80f7ff
> color (#!4 & sel) #5a80f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5980f7ff
> color (#!4 & sel) #5386f7ff
> color (#!4 & sel) #5586f7ff
> color (#!4 & sel) #5986f7ff
> color (#!4 & sel) #5f86f7ff
> color (#!4 & sel) #6186f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6386f7ff
> color (#!4 & sel) #6486f7ff
> color (#!4 & sel) #6786f7ff
> color (#!4 & sel) #6985f7ff
> color (#!4 & sel) #6a85f7ff
> color (#!4 & sel) #6c85f7ff
> color (#!4 & sel) #6e84f7ff
> color (#!4 & sel) #6f84f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6f83f7ff
> color (#!4 & sel) #7083f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #7183f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #7182f7ff
> color (#!4 & sel) #7181f7ff
> color (#!4 & sel) #7081f7ff
> color (#!4 & sel) #7080f7ff
> color (#!4 & sel) #707ff7ff
> color (#!4 & sel) #6f7df7ff
> color (#!4 & sel) #6f7cf7ff
> color (#!4 & sel) #6f7af7ff
> color (#!4 & sel) #7078f7ff
> color (#!4 & sel) #7277f7ff
> color (#!4 & sel) #7377f7ff
> color (#!4 & sel) #7477f7ff
> color (#!4 & sel) #7476f7ff
> color (#!4 & sel) #7577f7ff
> color (#!4 & sel) #7677f7ff
> color (#!4 & sel) #7678f7ff
> color (#!4 & sel) #7779f7ff
> color (#!4 & sel) #797bf7ff
> color (#!4 & sel) #7c7ef7ff
> color (#!4 & sel) #7e80f7ff
> color (#!4 & sel) #7f80f7ff
> color (#!4 & sel) #8081f7ff
> color (#!4 & sel) #8182f7ff
> color (#!4 & sel) #8282f7ff
> color (#!4 & sel) #8382f7ff
> color (#!4 & sel) #8383f7ff
> color (#!4 & sel) #8483f7ff
> color (#!4 & sel) #8586f7ff
> color (#!4 & sel) #858ef7ff
> color (#!4 & sel) #8297f7ff
> color (#!4 & sel) #819bf7ff
> color (#!4 & sel) #7f9cf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #7e9cf7ff
> color (#!4 & sel) #7c9df7ff
> color (#!4 & sel) #799bf7ff
> color (#!4 & sel) #7296f7ff
> color (#!4 & sel) #6b90f7ff
> color (#!4 & sel) #6487f7ff
> color (#!4 & sel) #6183f7ff
> color (#!4 & sel) #5c7ef7ff
> color (#!4 & sel) #5a7bf7ff
> color (#!4 & sel) #5979f7ff
> color (#!4 & sel) #5778f7ff
> color (#!4 & sel) #5677f7ff
> color (#!4 & sel) #5475f7ff
> color (#!4 & sel) #5273f7ff
> color (#!4 & sel) #4f73f7ff
> color (#!4 & sel) #4d74f7ff
> color (#!4 & sel) #4c74f7ff
> color (#!4 & sel) #4c75f7ff
> color (#!4 & sel) #4b75f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4772f7ff
> color (#!4 & sel) #446ff7ff
> color (#!4 & sel) #416bf7ff
> color (#!4 & sel) #4069f7ff
> color (#!4 & sel) #3e66f7ff
> color (#!4 & sel) #3c63f7ff
> color (#!4 & sel) #3b61f7ff
> color (#!4 & sel) #3a5cf7ff
> color (#!4 & sel) #395bf7ff
> color (#!4 & sel) #3959f7ff
> color (#!4 & sel) #3958f7ff
> color (#!4 & sel) #3957f7ff
> color (#!4 & sel) #3958f7ff
> undo
[Repeated 2 time(s)]
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #3f69f7ff
> color (#!4 & sel) #436af7ff
> color (#!4 & sel) #466cf7ff
> color (#!4 & sel) #5987f7ff
> color (#!4 & sel) #7ab4f7ff
> color (#!4 & sel) #81bef7ff
> color (#!4 & sel) #84c0f7ff
> color (#!4 & sel) #85c0f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #86bff7ff
> color (#!4 & sel) #87bef7ff
> color (#!4 & sel) #88bdf7ff
> color (#!4 & sel) #88bbf7ff
> color (#!4 & sel) #88b8f7ff
> color (#!4 & sel) #86b4f7ff
> color (#!4 & sel) #85b1f7ff
> color (#!4 & sel) #82aef7ff
> color (#!4 & sel) #80abf7ff
> color (#!4 & sel) #7ca7f7ff
> color (#!4 & sel) #79a3f7ff
> color (#!4 & sel) #77a1f7ff
> color (#!4 & sel) #759ff7ff
> color (#!4 & sel) #749ef7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #749df7ff
> color (#!4 & sel) #739cf7ff
> color (#!4 & sel) #729bf7ff
> color (#!4 & sel) #709af7ff
> color (#!4 & sel) #6f9af7ff
> color (#!4 & sel) #6e99f7ff
> color (#!4 & sel) #6d99f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #70a7f7ff
> color (#!4 & sel) #71adf7ff
> color (#!4 & sel) #72b0f7ff
> color (#!4 & sel) #72b2f7ff
> color (#!4 & sel) #73b3f7ff
> color (#!4 & sel) #73b6f7ff
> color (#!4 & sel) #73b9f7ff
> color (#!4 & sel) #73bbf7ff
> color (#!4 & sel) #73bef7ff
> color (#!4 & sel) #71c1f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #72c0f7ff
> color (#!4 & sel) #73bef7ff
> color (#!4 & sel) #74bbf7ff
> color (#!4 & sel) #76b8f7ff
> color (#!4 & sel) #77b2f7ff
> color (#!4 & sel) #75a8f7ff
> color (#!4 & sel) #72a2f7ff
> color (#!4 & sel) #719ef7ff
> color (#!4 & sel) #719df7ff
> color (#!4 & sel) #709bf7ff
> color (#!4 & sel) #7099f7ff
> color (#!4 & sel) #7097f7ff
> color (#!4 & sel) #7195f7ff
> color (#!4 & sel) #7494f7ff
> color (#!4 & sel) #7694f7ff
> color (#!4 & sel) #7892f7ff
> color (#!4 & sel) #7a92f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #7b92f7ff
> color (#!4 & sel) #7c91f7ff
> color (#!4 & sel) #7d91f7ff
> color (#!4 & sel) #7e90f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #7e91f7ff
> color (#!4 & sel) #7e92f7ff
> color (#!4 & sel) #7d93f7ff
> color (#!4 & sel) #7c93f7ff
> color (#!4 & sel) #7a93f7ff
> color (#!4 & sel) #7893f7ff
> color (#!4 & sel) #7793f7ff
> color (#!4 & sel) #7391f7ff
> color (#!4 & sel) #7090f7ff
> color (#!4 & sel) #6d8ef7ff
> color (#!4 & sel) #6b8cf7ff
> color (#!4 & sel) #6a8cf7ff
> color (#!4 & sel) #688bf7ff
> color (#!4 & sel) #678af7ff
> color (#!4 & sel) #668af7ff
> color (#!4 & sel) #6589f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6389f7ff
> color (#!4 & sel) #6189f7ff
> color (#!4 & sel) #6089f7ff
> color (#!4 & sel) #5e88f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5d89f7ff
> color (#!4 & sel) #5c89f7ff
> color (#!4 & sel) #5b89f7ff
> color (#!4 & sel) #5989f7ff
> color (#!4 & sel) #5889f7ff
> color (#!4 & sel) #568af7ff
> color (#!4 & sel) #558af7ff
> color (#!4 & sel) #548af7ff
> color (#!4 & sel) #528af7ff
> color (#!4 & sel) #508af7ff
> color (#!4 & sel) #4e8bf7ff
> color (#!4 & sel) #4d8bf7ff
> color (#!4 & sel) #4c8bf7ff
> color (#!4 & sel) #4b8bf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4a8bf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4a8cf7ff
> color (#!4 & sel) #4a8df7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #498ef7ff
> color (#!4 & sel) #4a8df7ff
> color (#!4 & sel) #4a8cf7ff
> color (#!4 & sel) #498bf7ff
> color (#!4 & sel) #498af7ff
> color (#!4 & sel) #4989f7ff
> color (#!4 & sel) #4988f7ff
> color (#!4 & sel) #4986f7ff
> color (#!4 & sel) #4c81f7ff
> color (#!4 & sel) #517df7ff
> color (#!4 & sel) #577bf7ff
> color (#!4 & sel) #5a78f7ff
> color (#!4 & sel) #5c77f7ff
> color (#!4 & sel) #5e75f7ff
> color (#!4 & sel) #6371f7ff
> color (#!4 & sel) #666df7ff
> color (#!4 & sel) #686bf7ff
> color (#!4 & sel) #6d6af7ff
> color (#!4 & sel) #736af7ff
> color (#!4 & sel) #786cf7ff
> color (#!4 & sel) #816bf7ff
> color (#!4 & sel) #8768f7ff
> color (#!4 & sel) #8c64f7ff
> color (#!4 & sel) #8e61f7ff
> color (#!4 & sel) #8d5ff7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #8562f7ff
> color (#!4 & sel) #6769f7ff
> color (#!4 & sel) #6575f7ff
> color (#!4 & sel) #6178f7ff
> color (#!4 & sel) #5d79f7ff
> color (#!4 & sel) #5778f7ff
> color (#!4 & sel) #5376f7ff
> color (#!4 & sel) #5075f7ff
> color (#!4 & sel) #4c73f7ff
> color (#!4 & sel) #4873f7ff
> color (#!4 & sel) #4271f7ff
> color (#!4 & sel) #1e6ef7ff
> color (#!4 & sel) #0071f7ff
> color (#!4 & sel) #0074f7ff
> color (#!4 & sel) #0071f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #006ff7ff
> color (#!4 & sel) #016ff7ff
> color (#!4 & sel) #026ff7ff
> color (#!4 & sel) #0470f7ff
> color (#!4 & sel) #0471f7ff
> color (#!4 & sel) #0672f7ff
> color (#!4 & sel) #0974f7ff
> color (#!4 & sel) #0b75f7ff
> color (#!4 & sel) #0f78f7ff
> color (#!4 & sel) #1078f7ff
> color (#!4 & sel) #137bf7ff
> color (#!4 & sel) #157df7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1780f7ff
> color (#!4 & sel) #1883f7ff
> color (#!4 & sel) #1985f7ff
> color (#!4 & sel) #1b89f7ff
> color (#!4 & sel) #1d8cf7ff
> color (#!4 & sel) #1e8ff7ff
> color (#!4 & sel) #1d8ff7ff
> color (#!4 & sel) #1e91f7ff
> color (#!4 & sel) #1f93f7ff
> color (#!4 & sel) #1f94f7ff
> color (#!4 & sel) #1f98f7ff
> color (#!4 & sel) #2099f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #2197f7ff
> color (#!4 & sel) #2295f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #2294f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #2293f7ff
> color (#!4 & sel) #2292f7ff
> color (#!4 & sel) #2191f7ff
> color (#!4 & sel) #2091f7ff
> color (#!4 & sel) #2090f7ff
> color (#!4 & sel) #1f8ff7ff
> color (#!4 & sel) #1e8ef7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1d8df7ff
> color (#!4 & sel) #1c8cf7ff
> color (#!4 & sel) #1c8bf7ff
> color (#!4 & sel) #1b8af7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1b88f7ff
> color (#!4 & sel) #1a88f7ff
> color (#!4 & sel) #1a87f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1a86f7ff
> color (#!4 & sel) #1986f7ff
> color (#!4 & sel) #1985f7ff
> color (#!4 & sel) #1884f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1783f7ff
> color (#!4 & sel) #1681f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1680f7ff
> color (#!4 & sel) #157ef7ff
> color (#!4 & sel) #167df7ff
> color (#!4 & sel) #167cf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #157bf7ff
> color (#!4 & sel) #1579f7ff
> color (#!4 & sel) #1678f7ff
> color (#!4 & sel) #1677f7ff
> color (#!4 & sel) #1675f7ff
> color (#!4 & sel) #1774f7ff
> color (#!4 & sel) #1873f7ff
> color (#!4 & sel) #1972f7ff
> color (#!4 & sel) #1a72f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1c73f7ff
> color (#!4 & sel) #217bf7ff
> color (#!4 & sel) #237ef7ff
> color (#!4 & sel) #2584f7ff
> color (#!4 & sel) #2685f7ff
> color (#!4 & sel) #2787f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #2888f7ff
> color (#!4 & sel) #2783efff
[Repeated 1 time(s)]
> color (#!4 & sel) #2683eeff
> color (#!4 & sel) #2681eaff
> color (#!4 & sel) #2580e8ff
> color (#!4 & sel) #257ee5ff
> color (#!4 & sel) #247ce2ff
> color (#!4 & sel) #247adeff
> color (#!4 & sel) #2479ddff
> color (#!4 & sel) #2378daff
> color (#!4 & sel) #2376d7ff
> color (#!4 & sel) #2375d6ff
> color (#!4 & sel) #2275d4ff
> color (#!4 & sel) #2274d4ff
> color (#!4 & sel) #2273d2ff
> color (#!4 & sel) #2273d1ff
> color (#!4 & sel) #2272d0ff
> color (#!4 & sel) #2171ceff
> color (#!4 & sel) #216fcaff
> color (#!4 & sel) #206cc4ff
> color (#!4 & sel) #1e68bcff
> color (#!4 & sel) #1e64b7ff
> color (#!4 & sel) #1d62b3ff
> color (#!4 & sel) #1d61b1ff
> color (#!4 & sel) #1c61b0ff
> color (#!4 & sel) #1c60afff
> color (#!4 & sel) #1c5fadff
> color (#!4 & sel) #1b5ba6ff
> color (#!4 & sel) #174e8eff
> color (#!4 & sel) #134074ff
> color (#!4 & sel) #103866ff
> color (#!4 & sel) #0f345fff
> color (#!4 & sel) #0f3560ff
> color (#!4 & sel) #113867ff
> color (#!4 & sel) #14437aff
> color (#!4 & sel) #1e65b8ff
> color (#!4 & sel) #2889faff
> color (#!4 & sel) #298cffff
> color (#!4 & sel) #75fbf6ff
[Repeated 2 time(s)]
> color (#!4 & sel) #74faf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #74faf6ff
[Repeated 1 time(s)]
> color (#!4 & sel) #74f9f4ff
> color (#!4 & sel) #74faf4ff
> color (#!4 & sel) #74faf5ff
> color (#!4 & sel) #74faf4ff
> color (#!4 & sel) #76faeeff
> color (#!4 & sel) #76f1faff
> color (#!4 & sel) #75e7faff
> color (#!4 & sel) #71d3faff
> color (#!4 & sel) #66b7faff
> color (#!4 & sel) #5ea8faff
> color (#!4 & sel) #559afaff
> color (#!4 & sel) #4387faff
> color (#!4 & sel) #3c81faff
> color (#!4 & sel) #367efaff
> color (#!4 & sel) #347dfaff
> color (#!4 & sel) #327bfaff
> color (#!4 & sel) #2f7afaff
> color (#!4 & sel) #2d79faff
> color (#!4 & sel) #2c79faff
> color (#!4 & sel) #2b78faff
> color (#!4 & sel) #2978faff
[Repeated 1 time(s)]
> color (#!4 & sel) #297afaff
> color (#!4 & sel) #2e80faff
> color (#!4 & sel) #3187faff
> color (#!4 & sel) #338cfaff
> color (#!4 & sel) #3592faff
> color (#!4 & sel) #3695faff
> color (#!4 & sel) #3797faff
> color (#!4 & sel) #3697faff
[Repeated 1 time(s)]
> color (#!4 & sel) #3596faff
> color (#!4 & sel) #3394faff
> color (#!4 & sel) #3293faff
> color (#!4 & sel) #3191faff
> color (#!4 & sel) #2f8ffaff
> color (#!4 & sel) #2e8dfaff
> color (#!4 & sel) #2c8bfaff
> color (#!4 & sel) #2c8afaff
> color (#!4 & sel) #2c89faff
> color (#!4 & sel) #2b88faff
> color (#!4 & sel) #2b87faff
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #2b88faff
> color (#!4 & sel) #2b8dfaff
> color (#!4 & sel) #2b8ffaff
> color (#!4 & sel) #2b91faff
> color (#!4 & sel) #2b93faff
> color (#!4 & sel) #2b95faff
> color (#!4 & sel) #2b96faff
> color (#!4 & sel) #2b97faff
> color (#!4 & sel) #2b9afaff
> color (#!4 & sel) #2b9dfaff
> color (#!4 & sel) #2ba0faff
> color (#!4 & sel) #2ba3faff
> color (#!4 & sel) #2ba7faff
> color (#!4 & sel) #2ba9faff
> color (#!4 & sel) #2babfaff
> color (#!4 & sel) #2baefaff
> color (#!4 & sel) #2baffaff
> color (#!4 & sel) #2bb1faff
> color (#!4 & sel) #2bb3faff
> color (#!4 & sel) #2bb5faff
> color (#!4 & sel) #2bb7faff
> color (#!4 & sel) #2bb9faff
> color (#!4 & sel) #2bbcfaff
> color (#!4 & sel) #2bbefaff
> color (#!4 & sel) #2bc0faff
> color (#!4 & sel) #2bc2faff
> color (#!4 & sel) #2bc4faff
> color (#!4 & sel) #2bc6faff
> color (#!4 & sel) #2bc8faff
> color (#!4 & sel) #2bc9faff
[Repeated 1 time(s)]
> color (#!4 & sel) #2bcafaff
> color (#!4 & sel) #2bcbfaff
[Repeated 2 time(s)]
> color (#!4 & sel) #2bcafaff
> color (#!4 & sel) #2bc9faff
> color (#!4 & sel) #2bc7faff
> color (#!4 & sel) #2bc6faff
> color (#!4 & sel) #2bc4faff
> color (#!4 & sel) #2bc1faff
> color (#!4 & sel) #2bbefaff
> color (#!4 & sel) #2bbbfaff
> color (#!4 & sel) #2bb8faff
> color (#!4 & sel) #2bb6faff
> color (#!4 & sel) #2bb4faff
> color (#!4 & sel) #2bb3faff
[Repeated 2 time(s)]
> color (#!4 & sel) #2bb4faff
> color (#!4 & sel) #2bb6faff
> color (#!4 & sel) #2bb8faff
> color (#!4 & sel) #2bbafaff
> color (#!4 & sel) #2bbcfaff
> color (#!4 & sel) #2bbdfaff
> color (#!4 & sel) #2bbefaff
> color (#!4 & sel) #2bbffaff
> color (#!4 & sel) #2bc1faff
[Repeated 1 time(s)]
> color (#!4 & sel) #2bc2faff
[Repeated 1 time(s)]
> color (#!4 & sel) #2bc3faff
> color (#!4 & sel) #2bc4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #2cc4faff
> color (#!4 & sel) #2dc4faff
> color (#!4 & sel) #2fc4faff
> color (#!4 & sel) #30c4faff
> color (#!4 & sel) #32c4faff
> color (#!4 & sel) #34c4faff
> color (#!4 & sel) #36c4faff
> color (#!4 & sel) #37c4faff
> color (#!4 & sel) #38c4faff
> color (#!4 & sel) #39c4faff
> color (#!4 & sel) #3ac4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #3cc4faff
> color (#!4 & sel) #3ec4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #3fc4faff
> color (#!4 & sel) #41c4faff
> color (#!4 & sel) #42c4faff
> color (#!4 & sel) #43c4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #45c4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #46c4faff
> color (#!4 & sel) #48c4faff
> color (#!4 & sel) #49c4faff
> color (#!4 & sel) #4bc4faff
> color (#!4 & sel) #4cc4faff
> color (#!4 & sel) #4ec4faff
> color (#!4 & sel) #50c4faff
> color (#!4 & sel) #52c4faff
> color (#!4 & sel) #54c4faff
> color (#!4 & sel) #55c4faff
> color (#!4 & sel) #57c4faff
> color (#!4 & sel) #5ac4faff
> color (#!4 & sel) #5bc4faff
> color (#!4 & sel) #5dc4faff
> color (#!4 & sel) #60c4faff
> color (#!4 & sel) #62c4faff
> color (#!4 & sel) #64c4faff
> color (#!4 & sel) #67c4faff
> color (#!4 & sel) #69c4faff
> color (#!4 & sel) #6bc4faff
> color (#!4 & sel) #6cc4faff
> color (#!4 & sel) #6dc4faff
> color (#!4 & sel) #6cc4faff
> color (#!4 & sel) #6ac4faff
> color (#!4 & sel) #68c4faff
> color (#!4 & sel) #65c4faff
> color (#!4 & sel) #60c4faff
> color (#!4 & sel) #50c4faff
> color (#!4 & sel) #49c4faff
> color (#!4 & sel) #45c4faff
> color (#!4 & sel) #42c4faff
> color (#!4 & sel) #41c4faff
> color (#!4 & sel) #3ec4faff
> color (#!4 & sel) #3cc4faff
> color (#!4 & sel) #39c4faff
> color (#!4 & sel) #37c4faff
> color (#!4 & sel) #36c4faff
> color (#!4 & sel) #35c4faff
> color (#!4 & sel) #33c4faff
> color (#!4 & sel) #30c4faff
> color (#!4 & sel) #2ec4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #30c4faff
> color (#!4 & sel) #34c4faff
> color (#!4 & sel) #35c4faff
> color (#!4 & sel) #38c4faff
> color (#!4 & sel) #39c4faff
> color (#!4 & sel) #3ac4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #3cc4faff
> color (#!4 & sel) #3ec4faff
> color (#!4 & sel) #3fc4faff
> color (#!4 & sel) #42c4faff
> color (#!4 & sel) #45c4faff
> color (#!4 & sel) #46c4faff
> color (#!4 & sel) #48c4faff
> color (#!4 & sel) #4ac4faff
> color (#!4 & sel) #4dc4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #4ec4faff
> color (#!4 & sel) #50c4faff
> color (#!4 & sel) #4fc3faff
> color (#!4 & sel) #4fc3f9ff
> color (#!4 & sel) #4ec1f7ff
> color (#!4 & sel) #4dbff5ff
> color (#!4 & sel) #4dbef4ff
> color (#!4 & sel) #4cbdf2ff
> color (#!4 & sel) #4bbbefff
> color (#!4 & sel) #4bbaeeff
> color (#!4 & sel) #4ab8ecff
> color (#!4 & sel) #4ab6eaff
> color (#!4 & sel) #49b5e8ff
> color (#!4 & sel) #49b4e7ff
> color (#!4 & sel) #48b2e4ff
> color (#!4 & sel) #47b0e2ff
> color (#!4 & sel) #47afe0ff
> color (#!4 & sel) #46aedfff
> color (#!4 & sel) #46addeff
> color (#!4 & sel) #45acdcff
> color (#!4 & sel) #45aadaff
> color (#!4 & sel) #44a8d7ff
> color (#!4 & sel) #43a7d5ff
> color (#!4 & sel) #43a5d4ff
> color (#!4 & sel) #42a3d1ff
> color (#!4 & sel) #41a2cfff
> color (#!4 & sel) #40a0cdff
> color (#!4 & sel) #409fcbff
> color (#!4 & sel) #409ecbff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select #4/D
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #409ecbff
> color (#!4 & sel) #2b87faff
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #2d97faff
> color (#!4 & sel) #2e97faff
> color (#!4 & sel) #2e98faff
> color (#!4 & sel) #2f98faff
> color (#!4 & sel) #3198faff
> color (#!4 & sel) #3398faff
> color (#!4 & sel) #3598faff
> color (#!4 & sel) #3898faff
> color (#!4 & sel) #3b98faff
> color (#!4 & sel) #3e98faff
> color (#!4 & sel) #3f98faff
> color (#!4 & sel) #4199faff
> color (#!4 & sel) #4299faff
> color (#!4 & sel) #479bfaff
> color (#!4 & sel) #4b9cfaff
> color (#!4 & sel) #4d9dfaff
> color (#!4 & sel) #4f9efaff
> color (#!4 & sel) #52a0faff
> color (#!4 & sel) #54a1faff
> color (#!4 & sel) #56a2faff
[Repeated 1 time(s)]
> color (#!4 & sel) #57a2faff
> color (#!4 & sel) #58a3faff
> color (#!4 & sel) #5aa5faff
> color (#!4 & sel) #5ba5faff
> color (#!4 & sel) #5ca5faff
> color (#!4 & sel) #5ea6faff
> color (#!4 & sel) #61a8faff
> color (#!4 & sel) #66aafaff
> color (#!4 & sel) #67aafaff
[Repeated 1 time(s)]
> color (#!4 & sel) #69acfaff
> color (#!4 & sel) #6aadfaff
> color (#!4 & sel) #6badfaff
> color (#!4 & sel) #6caefaff
> color (#!4 & sel) #6caffaff
> color (#!4 & sel) #6daffaff
> color (#!4 & sel) #6fb0faff
> color (#!4 & sel) #6fb1faff
> color (#!4 & sel) #71b2faff
> color (#!4 & sel) #74b4faff
> color (#!4 & sel) #76b4faff
> color (#!4 & sel) #78b5faff
> color (#!4 & sel) #7ab6faff
> color (#!4 & sel) #7bb7faff
[Repeated 1 time(s)]
> color (#!4 & sel) #7cb7faff
> color (#!4 & sel) #7eb8faff
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #7eb8faff
[Repeated 3 time(s)]
> color (#!4 & sel) #7eb8fafd
> color (#!4 & sel) #7eb8fafb
[Repeated 1 time(s)]
> color (#!4 & sel) #7eb8fafe
> color (#!4 & sel) #7eb8faff
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> select #4/B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #7eb8faff
> color (#!4 & sel) #7eb8fafe
> color (#!4 & sel) #7eb8fafb
> color (#!4 & sel) #7eb8faff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select ::name="UNL"
260 atoms, 276 bonds, 4 residues, 1 model selected
> color sel #73fcd6ff
> select
> ::name="AM2"::name="CA"::name="POV"::name="PTY"::name="UNL"::name="Y01"::name="YZY"::name="ZN"
1520 atoms, 1536 bonds, 52 residues, 2 models selected
> show (#!4 & sel) target ab
> select add #4
23424 atoms, 23968 bonds, 32 pseudobonds, 2740 residues, 4 models selected
> select subtract #4
632 atoms, 640 bonds, 24 residues, 1 model selected
> color #4 byhetero
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) light sea green
> color (#!4 & sel) #009193ff
> select #4/D
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #009193ff
> color (#!4 & sel) #009193fb
[Repeated 1 time(s)]
> color (#!4 & sel) #009193ff
> select #4/B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #409091ff
[Repeated 1 time(s)]
> color (#!4 & sel) #418f91ff
> color (#!4 & sel) #418d91ff
> color (#!4 & sel) #418b91ff
> color (#!4 & sel) #418a91ff
> color (#!4 & sel) #418991ff
> color (#!4 & sel) #418891ff
> color (#!4 & sel) #418791ff
> color (#!4 & sel) #418591ff
> color (#!4 & sel) #418491ff
[Repeated 1 time(s)]
> color (#!4 & sel) #418391ff
[Repeated 1 time(s)]
> color (#!4 & sel) #418291ff
[Repeated 1 time(s)]
> color (#!4 & sel) #418391ff
> color (#!4 & sel) #428891ff
> color (#!4 & sel) #418c91ff
> color (#!4 & sel) #408e91ff
> color (#!4 & sel) #409091ff
> color (#!4 & sel) #3f9191ff
> color (#!4 & sel) #3f9190ff
> color (#!4 & sel) #3e918fff
> color (#!4 & sel) #3d918eff
> color (#!4 & sel) #3c918dff
> color (#!4 & sel) #3c918bff
> color (#!4 & sel) #3c9189ff
[Repeated 1 time(s)]
> color (#!4 & sel) #3c9188ff
> color (#!4 & sel) #3c9187ff
[Repeated 1 time(s)]
> color (#!4 & sel) #3b9186ff
> color (#!4 & sel) #3b9185ff
> color (#!4 & sel) #3b9184ff
> color (#!4 & sel) #3b9183ff
> color (#!4 & sel) #3b9182ff
> color (#!4 & sel) #3a9180ff
> color (#!4 & sel) #3a917eff
> color (#!4 & sel) #3a917dff
> color (#!4 & sel) #39917dff
> color (#!4 & sel) #39917cff
> color (#!4 & sel) #38917bff
> color (#!4 & sel) #37917aff
> color (#!4 & sel) #369179ff
[Repeated 1 time(s)]
> color (#!4 & sel) #359179ff
> color (#!4 & sel) #349179ff
[Repeated 1 time(s)]
> color (#!4 & sel) #339179ff
[Repeated 1 time(s)]
> color (#!4 & sel) #329179ff
[Repeated 1 time(s)]
> color (#!4 & sel) #319179ff
[Repeated 1 time(s)]
> color (#!4 & sel) #309179ff
> color (#!4 & sel) #2e9178ff
> color (#!4 & sel) #2d9178ff
[Repeated 2 time(s)]
> color (#!4 & sel) #2c9177ff
> color (#!4 & sel) #2b9177ff
> color (#!4 & sel) #299175ff
> color (#!4 & sel) #279174ff
> color (#!4 & sel) #269173ff
[Repeated 2 time(s)]
> color (#!4 & sel) #259172ff
> color (#!4 & sel) #249171ff
[Repeated 2 time(s)]
> color (#!4 & sel) #249176ff
> color (#!4 & sel) #25917cff
> color (#!4 & sel) #279182ff
> color (#!4 & sel) #299186ff
> color (#!4 & sel) #2b918aff
> color (#!4 & sel) #2c918cff
> color (#!4 & sel) #2c918dff
> color (#!4 & sel) #2c918eff
> color (#!4 & sel) #2d918fff
> color (#!4 & sel) #2d9190ff
> color (#!4 & sel) #2d9191ff
> color (#!4 & sel) #2e9091ff
> color (#!4 & sel) #2e8f91ff
[Repeated 1 time(s)]
> color (#!4 & sel) #2e8e91ff
> color (#!4 & sel) #2e8e92ff
> color (#!4 & sel) #2f8f92ff
> color (#!4 & sel) #2f9194ff
> color (#!4 & sel) #309397ff
> color (#!4 & sel) #319699ff
> color (#!4 & sel) #32999dff
> color (#!4 & sel) #339ca0ff
> color (#!4 & sel) #339ea1ff
> color (#!4 & sel) #349fa2ff
> color (#!4 & sel) #349fa3ff
> color (#!4 & sel) #34a0a4ff
> color (#!4 & sel) #34a1a5ff
> color (#!4 & sel) #35a2a5ff
[Repeated 1 time(s)]
> color (#!4 & sel) #35a2a6ff
> color (#!4 & sel) #36a5a8ff
> color (#!4 & sel) #36a7abff
> color (#!4 & sel) #37a9acff
> color (#!4 & sel) #37a9adff
> color (#!4 & sel) #37aaaeff
> color (#!4 & sel) #38acb0ff
> color (#!4 & sel) #38adb1ff
> color (#!4 & sel) #39aeb2ff
> color (#!4 & sel) #39afb3ff
> color (#!4 & sel) #39b0b4ff
> color (#!4 & sel) #3ab1b5ff
> color (#!4 & sel) #3ab3b7ff
> color (#!4 & sel) #3bb5b9ff
> color (#!4 & sel) #3bb6baff
[Repeated 1 time(s)]
> color (#!4 & sel) #3bb6bbff
> color (#!4 & sel) #3cbabbff
> color (#!4 & sel) #3dbabbff
> color (#!4 & sel) #3ebabbff
> color (#!4 & sel) #40b9bbff
> color (#!4 & sel) #42b9bbff
> color (#!4 & sel) #45b8bbff
> color (#!4 & sel) #47b8bbff
> color (#!4 & sel) #4bb8bbff
> color (#!4 & sel) #4cb8bbff
> color (#!4 & sel) #4db8bbff
> color (#!4 & sel) #4fb8bbff
> color (#!4 & sel) #51b8bbff
> color (#!4 & sel) #52b7bbff
> color (#!4 & sel) #53b7bbff
> color (#!4 & sel) #54b7bbff
> color (#!4 & sel) #55b6bbff
[Repeated 1 time(s)]
> color (#!4 & sel) #56b6bbff
> color (#!4 & sel) #57b5bbff
> color (#!4 & sel) #58b5bbff
> color (#!4 & sel) #59b4bbff
> color (#!4 & sel) #5ab3bbff
> color (#!4 & sel) #5bb3bbff
> color (#!4 & sel) #5cb3bbff
> color (#!4 & sel) #5eb3bbff
> color (#!4 & sel) #62b2bbff
> color (#!4 & sel) #66b2bbff
> color (#!4 & sel) #69b2bbff
> color (#!4 & sel) #6ab2bbff
> color (#!4 & sel) #6bb2bbff
> color (#!4 & sel) #6cb2bbff
> color (#!4 & sel) #6cb1bbff
> color (#!4 & sel) #6dafbbff
> color (#!4 & sel) #6caebbff
> color (#!4 & sel) #6cacbbff
> color (#!4 & sel) #6baabbff
> color (#!4 & sel) #6ba6bbff
> color (#!4 & sel) #6ba4bbff
> color (#!4 & sel) #6ba2bbff
> color (#!4 & sel) #6ba1bbff
[Repeated 1 time(s)]
> color (#!4 & sel) #6aa0bbff
> color (#!4 & sel) #6b9fbbff
[Repeated 2 time(s)]
> color (#!4 & sel) #6ba6bbff
> color (#!4 & sel) #69abbbff
> color (#!4 & sel) #68adbbff
> color (#!4 & sel) #67b0bbff
> color (#!4 & sel) #66b1bbff
> color (#!4 & sel) #66b2bbff
> color (#!4 & sel) #64b4bbff
> color (#!4 & sel) #63b6bbff
> color (#!4 & sel) #62b8bbff
> color (#!4 & sel) #61b9bbff
> color (#!4 & sel) #60babbff
> color (#!4 & sel) #5fbbbaff
[Repeated 1 time(s)]
> color (#!4 & sel) #5ebbb9ff
> color (#!4 & sel) #5dbbb8ff
> color (#!4 & sel) #5cbbb8ff
> color (#!4 & sel) #59bbb8ff
> color (#!4 & sel) #57bbb8ff
> color (#!4 & sel) #55bbb8ff
> color (#!4 & sel) #53bbb8ff
> color (#!4 & sel) #52bbb9ff
[Repeated 1 time(s)]
> color (#!4 & sel) #51bbb9ff
[Repeated 1 time(s)]
> color (#!4 & sel) #50bbb8ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4fbbb9ff
> color (#!4 & sel) #4ebbb9ff
> color (#!4 & sel) #4dbbbaff
[Repeated 2 time(s)]
> color (#!4 & sel) #4bbbbaff
> color (#!4 & sel) #4abbb9ff
> color (#!4 & sel) #4abbb8ff
> color (#!4 & sel) #49bbb8ff
[Repeated 1 time(s)]
> color (#!4 & sel) #48bbb7ff
> color (#!4 & sel) #47bbb6ff
[Repeated 1 time(s)]
> color (#!4 & sel) #46bbb5ff
> color (#!4 & sel) #45bbb4ff
[Repeated 1 time(s)]
> color (#!4 & sel) #44bbb4ff
> color (#!4 & sel) #44bbb3ff
[Repeated 1 time(s)]
> color (#!4 & sel) #43bbb2ff
[Repeated 1 time(s)]
> color (#!4 & sel) #43bab1ff
> color (#!4 & sel) #41b4acff
> color (#!4 & sel) #40b2a9ff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #40b2a9ff
> color (#!4 & sel) #40b2a9fb
> color (#!4 & sel) #40b2a9ef
[Repeated 1 time(s)]
> color (#!4 & sel) #40b2a9f2
[Repeated 1 time(s)]
> color (#!4 & sel) #40b2a9ff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select
> ::name="AM2"::name="CA"::name="POV"::name="PTY"::name="UNL"::name="Y01"::name="YZY"::name="ZN"
1520 atoms, 1536 bonds, 52 residues, 2 models selected
> select clear
> color #4 byhetero
> select ::name="UNL"
260 atoms, 276 bonds, 4 residues, 1 model selected
> color sel #73fcd6ff
> color sel byhetero
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> color #3 #009193ff models
> show #!3 models
> color #3 #43a1a3ff models
> color #3 #5bdddfff models
> color #3 #5bdddf66 models
> color #3 #92d0df66 models
> show #!2 models
> show #!1 models
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX sessions/AM_BTD_nano
> session.cxs"
> select
> ::name="AM2"::name="CA"::name="POV"::name="PTY"::name="UNL"::name="Y01"::name="YZY"::name="ZN"
1520 atoms, 1536 bonds, 52 residues, 2 models selected
> show sel target ab
> select add #4
23424 atoms, 23968 bonds, 32 pseudobonds, 2740 residues, 4 models selected
> select subtract #4
632 atoms, 640 bonds, 24 residues, 1 model selected
> select add #1
22384 atoms, 22912 bonds, 12 pseudobonds, 2696 residues, 2 models selected
> select subtract #1
Nothing selected
> hide #!3 models
> show #!3 models
> hide #!4 models
> show #!4 models
> hide #!3 models
> hide #!4 models
> volume #2 level 0.9812
> show #!3 models
> show #!4 models
> hide #!2 models
> hide #!1 models
> show #!2 models
> show #!1 models
> ui tool show "Side View"
> hide #!3 models
> show #!3 models
> volume #3 level 0.6068
> volume #3 level 1.545
> volume #2 level 1.399
> lighting soft
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX sessions/AM_BTD_nano
> session.cxs"
——— End of log from Wed Aug 27 11:40:08 2025 ———
opened ChimeraX session
> close #1
> close #2
> color #3 silver models
> color #3 #c0c0c080 models
> view orient
> ui tool show "Side View"
> view orient
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> ui tool show "Hide Dust"
> surface dust #3 size 4.44
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX sessions/Just N_BTD.cxs"
——— End of log from Thu Sep 18 15:16:59 2025 ———
opened ChimeraX session
> hide #!3 models
> select /B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #40b2a9ff
> color (#!4 & sel) #40b2a5ff
> color (#!4 & sel) #40b2a1ff
> color (#!4 & sel) #39b2a1ff
> color (#!4 & sel) #39b29eff
> color (#!4 & sel) #39b29bff
> color (#!4 & sel) #39b292ff
> color (#!4 & sel) #39b28eff
> color (#!4 & sel) #39b28dff
> color (#!4 & sel) #39b28eff
> color (#!4 & sel) #39b2a0ff
> color (#!4 & sel) #39b2a1ff
> color (#!4 & sel) #39b2b2ff
> color (#!4 & sel) #39b2b9ff
> color (#!4 & sel) #39b2baff
> color (#!4 & sel) #39b2bcff
> color (#!4 & sel) #39b2c5ff
> color (#!4 & sel) #39b2c8ff
> color (#!4 & sel) #39b2c9ff
> color (#!4 & sel) #39b2c2ff
> color (#!4 & sel) #39b2a7ff
> color (#!4 & sel) #39b29fff
> color (#!4 & sel) #39b291ff
> color (#!4 & sel) #39b286ff
> color (#!4 & sel) #39b284ff
> color (#!4 & sel) #39b282ff
> color (#!4 & sel) #39b281ff
> color (#!4 & sel) #39b280ff
> color (#!4 & sel) #39b275ff
> color (#!4 & sel) #39b274ff
> color (#!4 & sel) #39b276ff
> color (#!4 & sel) #39b277ff
> color (#!4 & sel) #39b278ff
> color (#!4 & sel) #39b27aff
> color (#!4 & sel) #39b27eff
> color (#!4 & sel) #39b280ff
> color (#!4 & sel) #39b289ff
> color (#!4 & sel) #39b28bff
> color (#!4 & sel) #39b28cff
> color (#!4 & sel) #39ab8cff
> color (#!4 & sel) #39a88cff
> color (#!4 & sel) #39a68cff
> color (#!4 & sel) #39a38cff
> color (#!4 & sel) #39a18cff
> color (#!4 & sel) #399c8cff
> color (#!4 & sel) #399b8cff
> color (#!4 & sel) #399c8cff
> color (#!4 & sel) #39a68cff
> color (#!4 & sel) #39a78cff
> color (#!4 & sel) #39aa8cff
> color (#!4 & sel) #39af8cff
> color (#!4 & sel) #39b68cff
> color (#!4 & sel) #39bb8cff
> color (#!4 & sel) #39be8cff
> color (#!4 & sel) #39c08cff
> color (#!4 & sel) #39c18cff
> color (#!4 & sel) #39bf8cff
> color (#!4 & sel) #39bd8cff
> color (#!4 & sel) #39bb8cff
> color (#!4 & sel) #39b88cff
> color (#!4 & sel) #39b58cff
> color (#!4 & sel) #39b48cff
> color (#!4 & sel) #39b38cff
> color (#!4 & sel) #39b28cff
> color (#!4 & sel) #3bb28cff
> color (#!4 & sel) #3eb28cff
> color (#!4 & sel) #3fb28cff
> color (#!4 & sel) #42b28cff
> color (#!4 & sel) #43b28cff
> color (#!4 & sel) #49b28cff
> color (#!4 & sel) #4cb28cff
> color (#!4 & sel) #4db28cff
> color (#!4 & sel) #50b28cff
> color (#!4 & sel) #51b28cff
> color (#!4 & sel) #53b28cff
> color (#!4 & sel) #53af8cff
> color (#!4 & sel) #53a98cff
> color (#!4 & sel) #539d8cff
> color (#!4 & sel) #53978cff
> color (#!4 & sel) #53958cff
> color (#!4 & sel) #53938cff
> color (#!4 & sel) #53918cff
> color (#!4 & sel) #53908cff
> color (#!4 & sel) #538d8cff
> color (#!4 & sel) #538c8cff
> color (#!4 & sel) #538b8cff
> color (#!4 & sel) #538a8cff
> color (#!4 & sel) #53888cff
> color (#!4 & sel) #53878cff
> color (#!4 & sel) #53818cff
> color (#!4 & sel) #53808cff
> color (#!4 & sel) #53768cff
> color (#!4 & sel) #53748cff
> color (#!4 & sel) #53728cff
> color (#!4 & sel) #536d8cff
> color (#!4 & sel) #536c8cff
> color (#!4 & sel) #536b8cff
> color (#!4 & sel) #536a8cff
> color (#!4 & sel) #536d8cff
> color (#!4 & sel) #53708cff
> color (#!4 & sel) #53738cff
> color (#!4 & sel) #53768cff
> color (#!4 & sel) #53788cff
> color (#!4 & sel) #53798cff
> color (#!4 & sel) #537b8cff
> color (#!4 & sel) #537c8cff
> color (#!4 & sel) #53818cff
> color (#!4 & sel) #53848cff
> color (#!4 & sel) #538488ff
> color (#!4 & sel) #538487ff
> color (#!4 & sel) #538485ff
> color (#!4 & sel) #538484ff
> color (#!4 & sel) #538483ff
> color (#!4 & sel) #538480ff
> color (#!4 & sel) #538476ff
> color (#!4 & sel) #528476ff
> color (#!4 & sel) #4f8476ff
> color (#!4 & sel) #4c8476ff
> color (#!4 & sel) #478476ff
> color (#!4 & sel) #448476ff
> color (#!4 & sel) #428476ff
> color (#!4 & sel) #408476ff
> color (#!4 & sel) #3c8476ff
> color (#!4 & sel) #3a8476ff
> color (#!4 & sel) #398476ff
> color (#!4 & sel) #388476ff
> color (#!4 & sel) #368476ff
> color (#!4 & sel) #348476ff
> color (#!4 & sel) #328476ff
> color (#!4 & sel) #318476ff
> color (#!4 & sel) #308476ff
> color (#!4 & sel) #318476ff
> color (#!4 & sel) #428476ff
> color (#!4 & sel) #568476ff
> color (#!4 & sel) #628476ff
> color (#!4 & sel) #668476ff
> color (#!4 & sel) #6b8476ff
> color (#!4 & sel) #6f8476ff
> color (#!4 & sel) #708476ff
> color (#!4 & sel) #698476ff
> color (#!4 & sel) #5f8476ff
> color (#!4 & sel) #588476ff
> color (#!4 & sel) #568476ff
> color (#!4 & sel) #548476ff
> color (#!4 & sel) #009051ff
> color (#!4 & sel) #005493ff
> color (#!4 & sel) #005491ff
> color (#!4 & sel) #00548fff
> color (#!4 & sel) #00548dff
> color (#!4 & sel) #00548bff
> color (#!4 & sel) #005487ff
> color (#!4 & sel) #005480ff
> color (#!4 & sel) #005475ff
> color (#!4 & sel) #005471ff
> color (#!4 & sel) #00546eff
> color (#!4 & sel) #00546cff
> color (#!4 & sel) #00546bff
> color (#!4 & sel) #00546aff
> color (#!4 & sel) #005470ff
> color (#!4 & sel) #005472ff
> color (#!4 & sel) #005473ff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> color #4 #005473ff
> color #4 #005673ff
> color #4 #005873ff
> color #4 #005973ff
> color #4 #005d73ff
> color #4 #006773ff
> color #4 #006873ff
> color #4 #006b73ff
> color #4 #006c73ff
> color #4 #006d73ff
> color #4 #006f73ff
> color #4 #007273ff
> color #4 #007473ff
> color #4 #007573ff
> color #4 #007673ff
> color #4 #007873ff
> color #4 #007a73ff
> undo
The cached device pixel ratio value was stale on window expose. Please file a
QTBUG which explains how to reproduce.
> undo
> color #4 #009193ff
> select /B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #009193ff
> color (#!4 & sel) #009194ff
> color (#!4 & sel) #009196ff
> color (#!4 & sel) #009195ff
> color (#!4 & sel) #009194ff
> color (#!4 & sel) #009193ff
> color (#!4 & sel) #009191ff
> color (#!4 & sel) #00918fff
> color (#!4 & sel) #00918dff
> color (#!4 & sel) #00918aff
> color (#!4 & sel) #009188ff
> color (#!4 & sel) #009185ff
> color (#!4 & sel) #009184ff
> color (#!4 & sel) #009183ff
> color (#!4 & sel) #009181ff
> color (#!4 & sel) #00917eff
> color (#!4 & sel) #00917bff
> color (#!4 & sel) #009178ff
> color (#!4 & sel) #009177ff
> color (#!4 & sel) #009176ff
> color (#!4 & sel) #009175ff
> color (#!4 & sel) #009174ff
> color (#!4 & sel) #009171ff
> color (#!4 & sel) #00916fff
> color (#!4 & sel) #00916eff
> color (#!4 & sel) #008e6eff
> color (#!4 & sel) #008a6eff
> color (#!4 & sel) #00866eff
> color (#!4 & sel) #00826eff
> color (#!4 & sel) #00806eff
> color (#!4 & sel) #00806fff
> color (#!4 & sel) #00807eff
> color (#!4 & sel) #008082ff
> color (#!4 & sel) #008084ff
> color (#!4 & sel) #008089ff
> color (#!4 & sel) #008092ff
> color (#!4 & sel) #008097ff
> color (#!4 & sel) #00809aff
> color (#!4 & sel) #00809cff
> color (#!4 & sel) #00809dff
> color (#!4 & sel) #00809eff
> color (#!4 & sel) #0080a3ff
> color (#!4 & sel) #0080a6ff
> color (#!4 & sel) #0080a7ff
> color (#!4 & sel) #0080a8ff
> color (#!4 & sel) #0080a9ff
> color (#!4 & sel) #0080abff
> color (#!4 & sel) #0080adff
> color (#!4 & sel) #0080aeff
> color (#!4 & sel) #0080afff
> color (#!4 & sel) #0080b0ff
> color (#!4 & sel) #0080b1ff
> color (#!4 & sel) #0080b0ff
> color (#!4 & sel) #0080acff
> color (#!4 & sel) #0080a4ff
> color (#!4 & sel) #008098ff
> color (#!4 & sel) #00808cff
> color (#!4 & sel) #008089ff
> color (#!4 & sel) #008085ff
> color (#!4 & sel) #008083ff
> color (#!4 & sel) #008081ff
> color (#!4 & sel) #00807cff
> color (#!4 & sel) #008079ff
> color (#!4 & sel) #008077ff
> color (#!4 & sel) #008076ff
> color (#!4 & sel) #008074ff
> color (#!4 & sel) #008073ff
> color (#!4 & sel) #008072ff
> color (#!4 & sel) #008071ff
> color (#!4 & sel) #00806fff
> color (#!4 & sel) #00806eff
> color (#!4 & sel) #00806cff
> color (#!4 & sel) #00806bff
> color (#!4 & sel) #00806aff
> color (#!4 & sel) #007f6aff
> color (#!4 & sel) #007e6aff
> color (#!4 & sel) #007d6aff
> color (#!4 & sel) #00796aff
> color (#!4 & sel) #00736aff
> color (#!4 & sel) #006f6aff
> color (#!4 & sel) #006d6aff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select /B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #2d6b6aff
> color (#!4 & sel) #2d6c6bff
> color (#!4 & sel) #2e6d6cff
> color (#!4 & sel) #2f706fff
> color (#!4 & sel) #307372ff
> color (#!4 & sel) #347b7aff
> color (#!4 & sel) #378281ff
> color (#!4 & sel) #398786ff
> color (#!4 & sel) #3b8b8aff
> color (#!4 & sel) #3d918fff
> color (#!4 & sel) #3e9493ff
> color (#!4 & sel) #419998ff
> color (#!4 & sel) #429c9aff
> color (#!4 & sel) #439e9dff
> color (#!4 & sel) #44a19fff
> color (#!4 & sel) #45a3a2ff
> color (#!4 & sel) #46a5a3ff
> color (#!4 & sel) #47a8a7ff
> color (#!4 & sel) #48aaa8ff
> color (#!4 & sel) #49adacff
> color (#!4 & sel) #49aeacff
> color (#!4 & sel) #4aafadff
> color (#!4 & sel) #4ab0aeff
> color (#!4 & sel) #4ab0afff
> color (#!4 & sel) #4cb3b1ff
> color (#!4 & sel) #4db7b5ff
> color (#!4 & sel) #4db8b6ff
> color (#!4 & sel) #4eb8b6ff
> color (#!4 & sel) #4eb9b7ff
> color (#!4 & sel) #4fbbb9ff
> color (#!4 & sel) #4fbcbbff
> color (#!4 & sel) #50bdbbff
> color (#!4 & sel) #51c0beff
> color (#!4 & sel) #52c1c0ff
> color (#!4 & sel) #52c2c0ff
> color (#!4 & sel) #50bdbcff
> color (#!4 & sel) #4db8b6ff
> color (#!4 & sel) #4bb2b1ff
> color (#!4 & sel) #4bb1b0ff
> color (#!4 & sel) #49aeacff
> color (#!4 & sel) #44a09fff
> color (#!4 & sel) #398786ff
> color (#!4 & sel) #388685ff
> color (#!4 & sel) #378381ff
> color (#!4 & sel) #36807eff
> color (#!4 & sel) #398685ff
> color (#!4 & sel) #398887ff
> color (#!4 & sel) #3a8a89ff
> color (#!4 & sel) #3b8b8aff
> color (#!4 & sel) #3a8a89ff
> color (#!4 & sel) #36807eff
> color (#!4 & sel) #337978ff
> color (#!4 & sel) #337877ff
> color (#!4 & sel) #327776ff
> color (#!4 & sel) #317372ff
> color (#!4 & sel) #307170ff
> color (#!4 & sel) #307271ff
> color (#!4 & sel) #307372ff
> color (#!4 & sel) #317574ff
> color (#!4 & sel) #327877ff
> color (#!4 & sel) #337a79ff
> color (#!4 & sel) #317a77ff
> color (#!4 & sel) #317a76ff
> color (#!4 & sel) #317a74ff
> color (#!4 & sel) #317a72ff
> color (#!4 & sel) #317a71ff
> color (#!4 & sel) #317a6fff
> color (#!4 & sel) #317a6eff
> color (#!4 & sel) #307a6dff
> color (#!4 & sel) #307a6cff
> color (#!4 & sel) #2f7a6aff
> color (#!4 & sel) #2f7a69ff
> color (#!4 & sel) #2f7a68ff
> color (#!4 & sel) #2e7a67ff
> color (#!4 & sel) #2e7a66ff
> color (#!4 & sel) #2e7a65ff
> color (#!4 & sel) #2d7a64ff
> color (#!4 & sel) #2d7a63ff
> color (#!4 & sel) #2d7a62ff
> color (#!4 & sel) #2d7a61ff
> color (#!4 & sel) #2c7a61ff
> color (#!4 & sel) #2c7a60ff
> color (#!4 & sel) #2c7a5fff
> color (#!4 & sel) #2b7a5eff
> color (#!4 & sel) #2b7a5dff
> color (#!4 & sel) #2c7d60ff
> color (#!4 & sel) #2d8062ff
> color (#!4 & sel) #2f8667ff
> color (#!4 & sel) #318c6bff
> color (#!4 & sel) #328d6cff
> color (#!4 & sel) #328f6dff
> color (#!4 & sel) #33906eff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> color #4 #56c3c7ff
> color #4 #48a4a7ff
> color #4 #54bfc3ff
> color #4 #51c3abff
> color #4 #51c3aaff
> select /B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #51c3aaff
> color (#!4 & sel) #51c1aaff
> color (#!4 & sel) #51b9aaff
> color (#!4 & sel) #51b0aaff
> color (#!4 & sel) #51a9aaff
> color (#!4 & sel) #51a8aaff
> color (#!4 & sel) #519faaff
> color (#!4 & sel) #519baaff
> color (#!4 & sel) #5196aaff
> color (#!4 & sel) #5191aaff
> color (#!4 & sel) #518eaaff
> color (#!4 & sel) #518daaff
> color (#!4 & sel) #5189aaff
> color (#!4 & sel) #5185aaff
> color (#!4 & sel) #5184aaff
> color (#!4 & sel) #518baaff
> color (#!4 & sel) #518ba9ff
> color (#!4 & sel) #518ba2ff
> color (#!4 & sel) #518b9dff
> color (#!4 & sel) #518b9aff
> color (#!4 & sel) #518b98ff
> color (#!4 & sel) #518b92ff
> color (#!4 & sel) #518b8bff
> color (#!4 & sel) #518b89ff
> color (#!4 & sel) #518b88ff
> color (#!4 & sel) #518b86ff
> color (#!4 & sel) #518b85ff
> color (#!4 & sel) #518b82ff
> color (#!4 & sel) #518b80ff
> color (#!4 & sel) #518280ff
> color (#!4 & sel) #518080ff
> color (#!4 & sel) #517680ff
> color (#!4 & sel) #517380ff
> color (#!4 & sel) #516f80ff
> color (#!4 & sel) #518080ff
> color (#!4 & sel) #508080ff
> color (#!4 & sel) #4b8080ff
> color (#!4 & sel) #488080ff
> color (#!4 & sel) #468080ff
> color (#!4 & sel) #438080ff
> color (#!4 & sel) #3f8080ff
> color (#!4 & sel) #3c8080ff
> color (#!4 & sel) #3a8080ff
> color (#!4 & sel) #398080ff
> color (#!4 & sel) #388080ff
> color (#!4 & sel) #378080ff
> color (#!4 & sel) #358080ff
> color (#!4 & sel) #348080ff
> color (#!4 & sel) #328080ff
> color (#!4 & sel) #308080ff
> color (#!4 & sel) #2f8080ff
> color (#!4 & sel) #2e8080ff
> color (#!4 & sel) #2d8080ff
> color (#!4 & sel) #2c8080ff
> color (#!4 & sel) #2a8080ff
> color (#!4 & sel) #298080ff
> color (#!4 & sel) #288080ff
> color (#!4 & sel) #268080ff
> color (#!4 & sel) #248080ff
> color (#!4 & sel) #228080ff
> color (#!4 & sel) #208080ff
> color (#!4 & sel) #1e8080ff
> color (#!4 & sel) #1d8080ff
> color (#!4 & sel) #1c8080ff
> select /C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #1c7f7fff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> color #4 byhetero
> select ::name="UNL"
260 atoms, 276 bonds, 4 residues, 1 model selected
> color sel #73fcd6ff
> color sel #73fa79ff
> color sel #7a81ffff
> color sel #00fdffff
> color sel #00fa92ff
> color sel #0096ffff
> color sel #7a81ffff
> color sel byhetero
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select ::name="UNL"
260 atoms, 276 bonds, 4 residues, 1 model selected
> color sel #73fdffff
> color sel #97f9fdff
> color sel #98f9feff
> color sel #98faffff
> color sel #9cfff2ff
> color sel #9dfff2ff
> color sel #9ffff3ff
> color sel #a0fff3ff
> color sel #a1fff3ff
> color sel #a5fff3ff
> color sel #a7fff3ff
> color sel #a8fff3ff
> color sel #b1fff3ff
> color sel #b5fff3ff
> color sel #b6fff3ff
> color sel #b7fff4ff
> color sel #b8fff4ff
> color sel #b9fff4ff
> color sel #bbfff3ff
> color sel #bcfff3ff
> color sel #bdfff2ff
> color sel #73fdffff
> color sel #93f1f5ff
> color sel #93f1f6ff
> color sel #93f1f5ff
> color sel #92eff4ff
> color sel #90ecf1ff
> color sel #8be4e8ff
> color sel #7ac8cbff
> color sel #79c6caff
> color sel #72bcbfff
> color sel #6db3b7ff
> color sel #69adb0ff
> color sel #67a9acff
> color sel #65a6a9ff
> color sel #65a5a9ff
> color sel #66a8abff
> color sel #6eb5b8ff
> color sel #81d4d8ff
> color sel #98faffff
> color sel #93ffdcff
> color sel #94ffddff
> color sel #94ffdfff
> color sel #95ffe3ff
> color sel #96ffe6ff
> color sel #96ffeaff
> color sel #95fff3ff
> color sel #94fff4ff
> color sel #94fff5ff
> color sel #94fff6ff
> color sel #94feffff
> color sel #94fcffff
> color sel #94f9ffff
> color sel #93f8ffff
> color sel #92f3ffff
> color sel #92f1ffff
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> color sel #90e9ffff
> color sel #8fe8ffff
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> color sel #8ee6ffff
> color sel #8ee5ffff
> color sel #8ce1ffff
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> color sel #88d9ffff
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> color sel #86d6ffff
> color sel #85d3ffff
> color sel #86d2ffff
> color sel #86d1ffff
> color sel #85ceffff
> color sel #86cdffff
> color sel #86cbffff
> color sel #87caffff
> color sel #86caffff
> color sel #84caffff
> color sel #83caffff
> color sel #80caffff
> color sel #7ecaffff
> color sel #7ccaffff
> color sel #7bcbffff
> color sel #7acbffff
> color sel #7accffff
> color sel #7acdffff
> color sel #75cfffff
> color sel #74d0ffff
> color sel #71d0ffff
> color sel #70d0ffff
> color sel #6fd0ffff
> color sel #6bd0ffff
> color sel #6ad0ffff
> color sel #67d0ffff
> color sel #65d0ffff
> color sel #61d0ffff
> color sel #5fd0ffff
> color sel #5ed0ffff
> color sel #5cd0ffff
> color sel #5bd0ffff
> color sel #5ad0ffff
> color sel #57d0ffff
> color sel #56d0ffff
> color sel #55d0ffff
> color sel #53d0ffff
> color sel #52d0ffff
> color sel #51d0ffff
> color sel #4cd0ffff
> color sel #4bd0ffff
> color sel #4ad0ffff
> color sel #48d0ffff
> color sel #47d0ffff
> color sel #46d0ffff
> color sel #45d0ffff
> color sel #44d0ffff
> color sel #43d0ffff
> color sel #43cfffff
> color sel #42cfffff
> color sel #40cfffff
> color sel #3fceffff
> color sel #3eceffff
> color sel #3bcfffff
> color sel #3bd1ffff
> color sel #3cd2ffff
> color sel #3ad9ffff
> color sel #39daffff
> color sel #38dcffff
> color sel #37dfffff
> color sel #36e2ffff
> color sel #36e3ffff
> color sel #34e6ffff
> color sel #34e7ffff
> color sel #34e8ffff
> color sel #33e8ffff
> color sel #31edffff
> color sel #30edffff
> color sel #2cefffff
> color sel #2befffff
> color sel #2aefffff
> color sel #29f0ffff
> color sel #27f0ffff
> color sel #24f1ffff
> color sel #24f2ffff
> color sel #23f2ffff
> color sel #22f2ffff
> color sel #21f2ffff
> color sel #21f3ffff
> color sel #1ff3ffff
> color sel #1ff3f3ff
> color sel #1ff3efff
> color sel #1ff3ecff
> color sel #1ff3ebff
> color sel #1ff3e2ff
> color sel #1ff3dfff
> color sel #1ff3dcff
> color sel #1ff3daff
> color sel #1ff3d5ff
> color sel #1ff3d0ff
> color sel #1ff3ceff
> color sel #1ff3cbff
> color sel #1ff3caff
> color sel #1ff3c8ff
> color sel #1ff3c6ff
> color sel #1ff3c5ff
> color sel #1ff3c4ff
> color sel #7a81ffff
> undo
> color sel #76d6ffff
> color sel #7a81ffff
> color sel byhetero
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> lighting soft
> ui tool show "Side View"
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_BTD_side.png" width 2019
> height 1441 supersample 3 transparentBackground true
> show #!3 models
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_BTD_side_withmap.png"
> width 2019 height 1441 supersample 3
> hide #!3 models
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_BTD_top.png" width 2019
> height 1441 supersample 3 transparentBackground true
> show #!3 models
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_BTD_side_withmap.png"
> width 2019 height 1441 supersample 3
> hide #!3 models
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_BTD_bottom.png" width
> 2019 height 1441 supersample 3 transparentBackground true
> show #!3 models
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_BTD_bottom_withmap.png"
> width 2019 height 1441 supersample 3
> hide #!4 models
> hide #!3 models
> show #!4 models
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX sessions/Just N_BTD.cxs"
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX
> sessions/AM_BTD_nano session.cxs"
Opened AM237_nano_denmod_map.ccp4 as #2, grid size 167,167,197, pixel 0.74,
shown at level 1.4, step 1, values float32
Opened nano_BTD_denmod_map_.ccp4 as #3, grid size 185,185,199, pixel 0.74,
shown at level 1.54, step 1, values float32
opened ChimeraX session
> hide #!3 models
> hide #!4 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> hide #!2 models
> show #!3 models
> show #!4 models
> hide #!4 models
> show #!4 models
> show #!2 models
> hide #!3 models
> hide #!2 models
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #51c3aaff
> select #4/D
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) byhetero
> select #4/B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #1c7f7fff
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> color #4 #1c7f7fcc
> color #4 #1c7f7fff
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #51c3aaff
> select #4/D
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #52c3aaff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> color #4 byhetero
> select ::name="UNL"
260 atoms, 276 bonds, 4 residues, 1 model selected
> color sel #7a81ffff
> color sel byhetero
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> show #!3 models
> show #!2 models
> show #!1 models
> hide #!2 models
> hide #!4 models
> show #!4 models
> hide #!3 models
> show atoms
> lighting simple
> show #!3 models
> show #!2 models
> hide #!3 models
> hide #!2 models
> lighting soft
> show #!2 models
> show #!3 models
> color #3 #96e4d966 models
> color #3 #009193ff models
> color #3 #00919341 models
> color #3 #0091934a models
> color #3 #0091934e models
> color #3 #00919365 models
> color #3 #0091935a models
> color #3 #00919359 models
> lighting simple
> lighting soft
> volume #3 level 1.851
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_521.png" width
> 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_520.png" width
> 2019 height 1441 supersample 3
> hide #!4 models
> show #!4 models
> lighting simple
> lighting soft
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_519.png" width
> 2019 height 1441 supersample 3
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
> N/NanoAM237_addingligands_AM_2.pdb"
Summary of feedback from opening
/Users/bs18klrh/Library/CloudStorage/OneDrive-
UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
N/NanoAM237_addingligands_AM_2.pdb
---
warnings | Cannot find LINK/SSBOND residue POV (498 )
Cannot find LINK/SSBOND residue POV (313 )
Cannot find LINK/SSBOND residue POV (498 )
Cannot find LINK/SSBOND residue HIS (170 )
Cannot find LINK/SSBOND atom ZN in residue AM2 /C:749
14 messages similar to the above omitted
Chain information for NanoAM237_addingligands_AM_2.pdb #5
---
Chain | Description
A B C D | No description available
> hide #!1 models
> show #!4-5 atoms
> hide #!4 models
> hide #!3 models
> close #1
> color #5 #000a5aff
> color #5 #a5a5ffff
> color #5 #5e97faff
> color #5 #ccb4f8ff
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color #5 #d783ffff
> undo
> show #!4 models
> hide #!5 models
> hide #!2 models
> show #!5 models
> hide #!4 models
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select #5/A
5596 atoms, 5729 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!5 & sel) #7a81ffff
> color (#!5 & sel) #d783ffff
> select #5/B
5596 atoms, 5729 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!5 & sel) #ff85ffff
> color (#!5 & sel) #d783ffff
> select ::name="AM2"
148 atoms, 160 bonds, 4 residues, 1 model selected
> color sel #ff2f92ff
> select add #5
22384 atoms, 22916 bonds, 12 pseudobonds, 2696 residues, 2 models selected
> select subtract #5
Nothing selected
> color #5 byhetero
> show #!2 models
> show #!3 models
> show #!4 models
> save "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX
> sessions/AM_BTD_nano session.cxs"
> lighting simple
> lighting soft
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_522.png
> width 2019 height 1441 supersample 3
> hide #!3 models
> hide #!2 models
> show #!3 models
> show #!2 models
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_518.png
> width 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_517.png
> width 2019 height 1441 supersample 3
> volume #3 level 1.392
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_516.png
> width 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_515.png
> width 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> hide #!2 models
> show #!2 models
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_514.png
> width 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_512_631.png
> width 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> volume #3 level 1.576
> ui tool show "Hide Dust"
> surface dust #3 size 4.44
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_510_619.png
> width 2019 height 1441 supersample 3
> lighting soft
> lighting simple
> hide #!2 models
> show #!2 models
> lighting soft
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_509.png
> width 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> lighting simple
> lighting soft
> hide #!2 models
> show #!2 models
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_508.png
> width 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_507.png
> width 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> hide #!2 models
> show #!2 models
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_506.png
> width 936 height 668 supersample 3
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_506.png
> width 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> hide #!2 models
> show #!2 models
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_496.png
> width 2019 height 1441 supersample 3
> hide #!2 models
> hide #!3 models
> lighting simple
> select #5/C
5596 atoms, 5729 bonds, 3 pseudobonds, 674 residues, 2 models selected
> select ~sel & ##selected
16788 atoms, 17187 bonds, 9 pseudobonds, 2022 residues, 2 models selected
> hide (#!5 & sel) target a
> cartoon hide (#!5 & sel)
> select #4/B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> select ~sel & ##selected
17094 atoms, 17496 bonds, 24 pseudobonds, 2037 residues, 3 models selected
> hide (#!4 & sel) target a
> cartoon hide (#!4 & sel)
> select : 503-533
1968 atoms, 2000 bonds, 248 residues, 2 models selected
> select ~sel
43208 atoms, 44228 bonds, 44 pseudobonds, 5164 residues, 9 models selected
> hide (#!4-5 & sel) target a
> cartoon hide (#!4-5 & sel)
> lighting soft
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_S5.png
> width 2019 height 1441 supersample 3 transparentBackground true
> select add #5
44192 atoms, 45236 bonds, 44 pseudobonds, 5288 residues, 9 models selected
> select subtract #5
21808 atoms, 22320 bonds, 32 pseudobonds, 2592 residues, 7 models selected
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 7 models selected
> select subtract #4
4 models selected
> select subtract #3
2 models selected
> select subtract #2
Nothing selected
> select add #5
22384 atoms, 22916 bonds, 12 pseudobonds, 2696 residues, 2 models selected
> select add #4
45176 atoms, 46244 bonds, 44 pseudobonds, 5412 residues, 5 models selected
> show (#!4-5 & sel) target ab
> cartoon (#!4-5 & sel)
> select subtract #5
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> ui tool show "Side View"
> lighting simple
> show #!2 models
> show #!3 models
> lighting soft
> save /Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_AM_521.png
> width 2019 height 1441 supersample 3
> ui tool show Distances
> select add #5/C:749@CL02
1 atom, 1 residue, 1 model selected
> select add #4/B:521@CD1
2 atoms, 2 residues, 2 models selected
> select subtract #5/C:749@CL02
1 atom, 1 residue, 1 model selected
> select add #5/C:749@CL02
2 atoms, 2 residues, 2 models selected
> distance #4/B:521@CD1 #5/C:749@CL02
Distance between BTDNano_Model_2.pdb #4/B LEU 521 CD1 and
NanoAM237_addingligands_AM_2.pdb #5/C AM2 749 CL02: 2.182Å
> select subtract #5/C:749@CL02
1 atom, 1 residue, 1 model selected
> select subtract #4/B:521@CD1
Nothing selected
> select add #5/C:749@CL02
1 atom, 1 residue, 1 model selected
> select add #5/C:521@CD1
2 atoms, 2 residues, 1 model selected
> distance #5/C:749@CL02 #5/C:521@CD1
Distance between NanoAM237_addingligands_AM_2.pdb #5/C AM2 749 CL02 and LEU
521 CD1: 3.870Å
===== Log before crash end =====
Log:
UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX
> sessions/AM_BTD_nano session.cxs"
Opened AM237_nano_denmod_map.ccp4 as #2, grid size 167,167,197, pixel 0.74,
shown at level 1.4, step 1, values float32
Opened nano_BTD_denmod_map_.ccp4 as #3, grid size 185,185,199, pixel 0.74,
shown at level 1.85, step 1, values float32
Log from Mon Sep 22 14:29:23 2025UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX
> sessions/AM_BTD_nano session.cxs"
Opened AM237_nano_denmod_map.ccp4 as #2, grid size 167,167,197, pixel 0.74,
shown at level 1.4, step 1, values float32
Opened nano_BTD_denmod_map_.ccp4 as #3, grid size 185,185,199, pixel 0.74,
shown at level 1.54, step 1, values float32
Log from Wed Aug 27 11:40:08 2025UCSF ChimeraX version: 1.8 (2024-06-10)
© 2016-2024 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
> N/Ref_starting_model_real_space_refined_001.pdb"
Chain information for Ref_starting_model_real_space_refined_001.pdb #1
---
Chain | Description
A B C D | No description available
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
> N/AM237_nano_denmod_map.ccp4"
Opened AM237_nano_denmod_map.ccp4 as #2, grid size 167,167,197, pixel 0.74,
shown at level 4.75, step 1, values float32
> close #1
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
> N/NanoAM237_addingligands_AM_2.pdb"
Summary of feedback from opening
/Users/bs18klrh/Library/CloudStorage/OneDrive-
UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
N/NanoAM237_addingligands_AM_2.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
16783 messages similar to the above omitted
Cannot find LINK/SSBOND residue ASN (500 )
Cannot find LINK/SSBOND residue TRP (315 )
Cannot find LINK/SSBOND residue ASN (500 )
Cannot find LINK/SSBOND residue ZN (751 )
Cannot find LINK/SSBOND residue ZN (751 )
18 messages similar to the above omitted
Chain information for NanoAM237_addingligands_AM_2.pdb #1
---
Chain | Description
A B C D | No description available
> volume #2 level 1.462
> set bgColor white
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/BTD
> N/BTDNano_Model_1_ligands_010.pdb"
Summary of feedback from opening
/Users/bs18klrh/Library/CloudStorage/OneDrive-
UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/BTD
N/BTDNano_Model_1_ligands_010.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
17089 messages similar to the above omitted
Chain information for BTDNano_Model_1_ligands_010.pdb #3
---
Chain | Description
A B C D | No description available
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/BTD
> N/BTDNano_Model_1_ligands.pdb"
Summary of feedback from opening
/Users/bs18klrh/Library/CloudStorage/OneDrive-
UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/BTD
N/BTDNano_Model_1_ligands.pdb
---
warning | Cannot find LINK/SSBOND residue Y01 (798 )
Chain information for BTDNano_Model_1_ligands.pdb #4
---
Chain | Description
A B C D | No description available
> hide #!2 models
> hide #!1 models
> hide #!3 models
> hide #!4 models
> show #!2 models
> show #!1 models
> volume #2 level 1.13
> open
> /Users/bs18klrh/Desktop/BTD_nano/RealSpaceRefine_11/BTDNano_Model_1_ligands_real_space_refined_010-coot-0_real_space_refined_011.pdb
Chain information for
BTDNano_Model_1_ligands_real_space_refined_010-coot-0_real_space_refined_011.pdb
#5
---
Chain | Description
A B C D | No description available
> hide #!2 models
> hide #!1 models
> dssp
> open
> /Users/bs18klrh/Desktop/BTD_nano/RealSpaceRefine_10/BTDNano_Model_1_ligands_real_space_refined_010.pdb
Chain information for BTDNano_Model_1_ligands_real_space_refined_010.pdb #6
---
Chain | Description
A B C D | No description available
> dssp
> hide #!5 models
> show #!5 models
> hide #!6 models
> open
> /Users/bs18klrh/Desktop/BTD_nano/BTDNano_Model_1_ligands_real_space_refined_010-coot-1.pdb
Summary of feedback from opening
/Users/bs18klrh/Desktop/BTD_nano/BTDNano_Model_1_ligands_real_space_refined_010-coot-1.pdb
---
warnings | Duplicate atom serial number found: 1
Duplicate atom serial number found: 2
Duplicate atom serial number found: 3
Duplicate atom serial number found: 4
Duplicate atom serial number found: 5
17089 messages similar to the above omitted
Chain information for
BTDNano_Model_1_ligands_real_space_refined_010-coot-1.pdb #7
---
Chain | Description
A B C D | No description available
> hide #!5 models
> dssp
> hide #!7 models
> open
> /Users/bs18klrh/Desktop/BTD_nano/RealSpaceRefine_12/BTDNano_Model_1_ligands_real_space_refined_010-coot-1_real_space_refined_012.pdb
Chain information for
BTDNano_Model_1_ligands_real_space_refined_010-coot-1_real_space_refined_012.pdb
#8
---
Chain | Description
A B C D | No description available
> dssp
> close #3-7
> show #!1 models
> open
> /Users/bs18klrh/Desktop/BTD_nano/ResolveCryoEM_7/nano_BTD_denmod_map_.ccp4
Opened nano_BTD_denmod_map_.ccp4 as #3, grid size 185,185,199, pixel 0.74,
shown at level 4.9, step 1, values float32
> close #8
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/BTD
> N/BTDNano_Model_2.pdb"
Chain information for BTDNano_Model_2.pdb #4
---
Chain | Description
A B C D | No description available
> select add #3
2 models selected
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 5 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #3,-0.90341,0.42462,-0.059581,292.24,0.42708,0.90346,-0.036842,-55.125,0.038186,-0.058729,-0.99754,410.06,#4,-0.90341,0.42462,-0.059581,292.24,0.42708,0.90346,-0.036842,-55.125,0.038186,-0.058729,-0.99754,410.06
> ui mousemode right "translate selected models"
> view matrix models
> #3,-0.90341,0.42462,-0.059581,289.96,0.42708,0.90346,-0.036842,-53.26,0.038186,-0.058729,-0.99754,383.45,#4,-0.90341,0.42462,-0.059581,289.96,0.42708,0.90346,-0.036842,-53.26,0.038186,-0.058729,-0.99754,383.45
> view matrix models
> #3,-0.90341,0.42462,-0.059581,290.08,0.42708,0.90346,-0.036842,-56.025,0.038186,-0.058729,-0.99754,383.68,#4,-0.90341,0.42462,-0.059581,290.08,0.42708,0.90346,-0.036842,-56.025,0.038186,-0.058729,-0.99754,383.68
> view matrix models
> #3,-0.90341,0.42462,-0.059581,290.96,0.42708,0.90346,-0.036842,-52.864,0.038186,-0.058729,-0.99754,385.21,#4,-0.90341,0.42462,-0.059581,290.96,0.42708,0.90346,-0.036842,-52.864,0.038186,-0.058729,-0.99754,385.21
> view matrix models
> #3,-0.90341,0.42462,-0.059581,290.78,0.42708,0.90346,-0.036842,-54.831,0.038186,-0.058729,-0.99754,385.2,#4,-0.90341,0.42462,-0.059581,290.78,0.42708,0.90346,-0.036842,-54.831,0.038186,-0.058729,-0.99754,385.2
> view matrix models
> #3,-0.90341,0.42462,-0.059581,292.56,0.42708,0.90346,-0.036842,-54.636,0.038186,-0.058729,-0.99754,385.17,#4,-0.90341,0.42462,-0.059581,292.56,0.42708,0.90346,-0.036842,-54.636,0.038186,-0.058729,-0.99754,385.17
> select subtract #3
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> ui tool show "Fit in Map"
> show #!2 models
> fitmap #4 inMap #2
Fit molecule BTDNano_Model_2.pdb (#4) to map AM237_nano_denmod_map.ccp4 (#2)
using 22792 atoms
average map value = 3.157, steps = 92
shifted from previous position = 2.1
rotated from previous position = 4.14 degrees
atoms outside contour = 4544, contour level = 1.1304
Position of BTDNano_Model_2.pdb (#4) relative to AM237_nano_denmod_map.ccp4
(#2) coordinates:
Matrix rotation and translation
-0.89703356 0.44196244 0.00003946 275.64068818
0.44196244 0.89703355 0.00004569 -64.22831046
-0.00001520 0.00005842 -1.00000000 379.79764870
Axis 0.22689971 0.97391813 0.00003005
Axis point 145.30491249 0.00000000 189.89782990
Rotation angle (degrees) 179.99839228
Shift along axis 0.00109055
> fitmap #4 inMap #2
Fit molecule BTDNano_Model_2.pdb (#4) to map AM237_nano_denmod_map.ccp4 (#2)
using 22792 atoms
average map value = 3.157, steps = 40
shifted from previous position = 0.0132
rotated from previous position = 0.00613 degrees
atoms outside contour = 4549, contour level = 1.1304
Position of BTDNano_Model_2.pdb (#4) relative to AM237_nano_denmod_map.ccp4
(#2) coordinates:
Matrix rotation and translation
-0.89703071 0.44196822 -0.00006693 275.65955990
0.44196822 0.89703071 0.00003607 -64.22646289
0.00007598 0.00000278 -1.00000000 379.80412711
Axis -0.22690207 -0.97391758 -0.00000870
Axis point 145.30432644 0.00000000 189.90754198
Rotation angle (degrees) 179.99579636
Shift along axis 0.00025303
> fitmap #3 inMap #2
Fit map nano_BTD_denmod_map_.ccp4 in map AM237_nano_denmod_map.ccp4 using
68086 points
correlation = 0.9806, correlation about mean = 0.6791, overlap = 2.264e+06
steps = 84, shift = 2.39, angle = 4.14 degrees
Position of nano_BTD_denmod_map_.ccp4 (#3) relative to
AM237_nano_denmod_map.ccp4 (#2) coordinates:
Matrix rotation and translation
-0.89717553 0.44167415 0.00006373 275.71792953
0.44167416 0.89717553 0.00004592 -64.20037306
-0.00003690 0.00006935 -1.00000000 379.82753939
Axis 0.22674297 0.97395463 0.00003140
Axis point 145.33713347 0.00000000 189.91114835
Rotation angle (degrees) 179.99704004
Shift along axis 0.00077624
> volume #3 level 1.424
> hide #!2 models
> hide #!3 models
> show atoms
> hide atoms
> dssp
> hide #!4 models
> show #!2 models
> hide #!2 models
> select ::name="AM2"
148 atoms, 160 bonds, 4 residues, 1 model selected
> select
> ::name="AM2"::name="CA"::name="POV"::name="PTY"::name="UNL"::name="Y01"::name="YZY"::name="ZN"
1520 atoms, 1536 bonds, 52 residues, 2 models selected
> show (#!1 & sel) target ab
> select clear
> select #1/A
5596 atoms, 5728 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!1 & sel) #d783ffff
> select #1/B
5596 atoms, 5728 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!1 & sel) #7a81ffff
> color (#!1 & sel) #d783ffff
> select #1/C
5596 atoms, 5728 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!1 & sel) #ca8df8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c98df8ff
> color (#!1 & sel) #c88df8ff
> color (#!1 & sel) #c78ff8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c690f8ff
> color (#!1 & sel) #c590f8ff
> color (#!1 & sel) #c490f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c390f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c190f8ff
> color (#!1 & sel) #bf90f8ff
> color (#!1 & sel) #be90f8ff
> color (#!1 & sel) #bc90f8ff
> color (#!1 & sel) #ba8ff8ff
> color (#!1 & sel) #b88ff8ff
> color (#!1 & sel) #b790f8ff
> color (#!1 & sel) #b590f8ff
> color (#!1 & sel) #b490f8ff
> color (#!1 & sel) #b391f8ff
> color (#!1 & sel) #b491f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #b695f8ff
> color (#!1 & sel) #b494f8ff
> color (#!1 & sel) #b295f8ff
> color (#!1 & sel) #b097f8ff
> color (#!1 & sel) #ae98f8ff
> color (#!1 & sel) #ac98f8ff
> color (#!1 & sel) #a898f8ff
> color (#!1 & sel) #a598f8ff
> color (#!1 & sel) #a298f8ff
> color (#!1 & sel) #a197f8ff
> color (#!1 & sel) #9e97f8ff
> color (#!1 & sel) #9c97f8ff
> color (#!1 & sel) #9a98f8ff
> color (#!1 & sel) #9898f8ff
> color (#!1 & sel) #9899f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #999af8ff
> color (#!1 & sel) #b0a1f8ff
> color (#!1 & sel) #b8a5f8ff
> color (#!1 & sel) #bfa8f8ff
> color (#!1 & sel) #c4aaf8ff
> color (#!1 & sel) #c7abf8ff
> color (#!1 & sel) #ccacf8ff
> color (#!1 & sel) #d0adf8ff
> color (#!1 & sel) #d2adf8ff
> color (#!1 & sel) #d5adf8ff
> color (#!1 & sel) #d7adf8ff
> color (#!1 & sel) #daaef8ff
> color (#!1 & sel) #dcaef8ff
> color (#!1 & sel) #ddaef8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #e0aef8ff
> color (#!1 & sel) #e0aff8ff
> color (#!1 & sel) #e1aff8ff
> color (#!1 & sel) #e1b1f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #e0b1f8ff
> color (#!1 & sel) #dfb0f8ff
> color (#!1 & sel) #d9a7f8ff
> color (#!1 & sel) #d6a2f8ff
> color (#!1 & sel) #d5a1f8ff
> color (#!1 & sel) #d5a0f8ff
> color (#!1 & sel) #d59ff8ff
> color (#!1 & sel) #d49ef8ff
> color (#!1 & sel) #d39cf8ff
> color (#!1 & sel) #d29bf8ff
> color (#!1 & sel) #d199f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #d098f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #d097f8ff
> color (#!1 & sel) #cf97f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #d09cf8ff
> color (#!1 & sel) #d19ff8ff
> color (#!1 & sel) #d1a2f8ff
> color (#!1 & sel) #d1a5f8ff
> color (#!1 & sel) #d1a9f8ff
> color (#!1 & sel) #d1acf8ff
> color (#!1 & sel) #d1adf8ff
> color (#!1 & sel) #d1aef8ff
> color (#!1 & sel) #d1aff8ff
> color (#!1 & sel) #d0aef8ff
> color (#!1 & sel) #cfacf8ff
> color (#!1 & sel) #cea8f8ff
> color (#!1 & sel) #cea7f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cea6f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cea5f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cfa5f8ff
> color (#!1 & sel) #cfa7f8ff
> color (#!1 & sel) #cfa8f8ff
> color (#!1 & sel) #cfa9f8ff
> color (#!1 & sel) #cfaaf8ff
> color (#!1 & sel) #cfabf8ff
> color (#!1 & sel) #cfacf8ff
> color (#!1 & sel) #cfadf8ff
> color (#!1 & sel) #cfaef8ff
> color (#!1 & sel) #cfaff8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cfb0f8ff
> color (#!1 & sel) #ceb0f8ff
> color (#!1 & sel) #cfb1f8ff
> color (#!1 & sel) #cfb2f8ff
> color (#!1 & sel) #ceb2f8ff
> color (#!1 & sel) #cfb3f8ff
> color (#!1 & sel) #ceb4f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cdb4f8ff
> color (#!1 & sel) #cbb3f8ff
> color (#!1 & sel) #cab1f8ff
> color (#!1 & sel) #c9b0f8ff
> color (#!1 & sel) #c8aef8ff
> color (#!1 & sel) #c8adf8ff
> color (#!1 & sel) #c8abf8ff
> color (#!1 & sel) #c8aaf8ff
> color (#!1 & sel) #c8a9f8ff
> color (#!1 & sel) #c8a8f8ff
> color (#!1 & sel) #c8a6f8ff
> color (#!1 & sel) #c7a6f8ff
> color (#!1 & sel) #c7a5f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c7a4f8ff
> color (#!1 & sel) #c7a3f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c7a2f8ff
> color (#!1 & sel) #c7a1f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c7a0f8ff
> color (#!1 & sel) #c4a5f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c4a6f8ff
> color (#!1 & sel) #c4a7f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #c5aaf8ff
> color (#!1 & sel) #c6abf8ff
> color (#!1 & sel) #c7aef8ff
> color (#!1 & sel) #c8b0f8ff
> color (#!1 & sel) #c9b2f8ff
> color (#!1 & sel) #cab4f8ff
> color (#!1 & sel) #cbb6f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #cbb7f8ff
> color (#!1 & sel) #cbb8f8ff
> color (#!1 & sel) #ccb9f8ff
> color (#!1 & sel) #ccbbf8ff
> color (#!1 & sel) #ccbcf8ff
> color (#!1 & sel) #ccbef8ff
> color (#!1 & sel) #ccbdf8ff
> color (#!1 & sel) #cbb7f8ff
> color (#!1 & sel) #cab3f8ff
> color (#!1 & sel) #cab1f8ff
> color (#!1 & sel) #c9aff8ff
> color (#!1 & sel) #c9aef8ff
> color (#!1 & sel) #c8aaf8ff
> color (#!1 & sel) #c7a9f8ff
> color (#!1 & sel) #c6a7f8ff
> color (#!1 & sel) #c6a5f8ff
> color (#!1 & sel) #c5a3f8ff
> color (#!1 & sel) #c5a1f8ff
> color (#!1 & sel) #c49ff8ff
> color (#!1 & sel) #c49df8ff
> color (#!1 & sel) #c49cf8ff
> color (#!1 & sel) #c39cf8ff
> color (#!1 & sel) #c49bf8ff
> color (#!1 & sel) #c49cf8ff
> color (#!1 & sel) #c9a6f8ff
> color (#!1 & sel) #caabf8ff
> color (#!1 & sel) #cbadf8ff
> color (#!1 & sel) #cbaff8ff
> color (#!1 & sel) #cbb1f8ff
> color (#!1 & sel) #cbb3f8ff
[Repeated 1 time(s)]
> color (#!1 & sel) #ccb4f8ff
> select #1/D
5596 atoms, 5728 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!1 & sel) #ccb4f8ff
> select add #1
22384 atoms, 22912 bonds, 12 pseudobonds, 2696 residues, 2 models selected
> select subtract #1
Nothing selected
> select ::name="AM2"
148 atoms, 160 bonds, 4 residues, 1 model selected
> color sel #ff2f92ff
> select add #1
22384 atoms, 22912 bonds, 12 pseudobonds, 2696 residues, 2 models selected
> select subtract #1
Nothing selected
> color #1 byhetero
> color #2 #d783ffff models
> show #!2 models
> color #2 #f9caebff models
> color #2 #f9caeb66 models
> color #2 #c7caf566 models
> show #!1 atoms
> lighting soft
> ui tool show "Side View"
> lighting simple
> color #2 #f4cbe666 models
> color #2 #d5bdf466 models
> hide #!1 atoms
> show #!3 models
> show #!4 models
> hide #!2 models
> hide #!1 models
> hide #!3 models
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #0096ffff
> color (#!4 & sel) #76d6ffff
> color (#!4 & sel) #0096ffff
> color (#!4 & sel) #3d93f7ff
> color (#!4 & sel) #3f94f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4196f7ff
> color (#!4 & sel) #4498f7ff
> color (#!4 & sel) #469bf7ff
> color (#!4 & sel) #4a9ff7ff
> color (#!4 & sel) #4ca4f7ff
> color (#!4 & sel) #4ea8f7ff
> color (#!4 & sel) #50acf7ff
> color (#!4 & sel) #51adf7ff
> color (#!4 & sel) #52adf7ff
> color (#!4 & sel) #53aff7ff
> color (#!4 & sel) #54b0f7ff
> color (#!4 & sel) #56b2f7ff
> color (#!4 & sel) #56b3f7ff
> color (#!4 & sel) #58b4f7ff
> color (#!4 & sel) #5ab6f7ff
> color (#!4 & sel) #5bb7f7ff
> color (#!4 & sel) #5cb9f7ff
> color (#!4 & sel) #5dbaf7ff
> color (#!4 & sel) #5ebbf7ff
> color (#!4 & sel) #5ebcf7ff
> color (#!4 & sel) #61bff7ff
> color (#!4 & sel) #62c0f7ff
> color (#!4 & sel) #63c0f7ff
> color (#!4 & sel) #64c0f7ff
> color (#!4 & sel) #65c0f7ff
> color (#!4 & sel) #64bff7ff
> color (#!4 & sel) #60bcf7ff
> color (#!4 & sel) #5fbaf7ff
> color (#!4 & sel) #5eb8f7ff
> color (#!4 & sel) #5cb7f7ff
> color (#!4 & sel) #5cb6f7ff
> color (#!4 & sel) #5cb5f7ff
> color (#!4 & sel) #5bb4f7ff
> color (#!4 & sel) #5bb3f7ff
> color (#!4 & sel) #5ab2f7ff
> color (#!4 & sel) #59aff7ff
> color (#!4 & sel) #57acf7ff
> color (#!4 & sel) #55a8f7ff
> color (#!4 & sel) #55a7f7ff
> color (#!4 & sel) #53a4f7ff
> color (#!4 & sel) #519ff7ff
> color (#!4 & sel) #4e96f7ff
> color (#!4 & sel) #4e91f7ff
> color (#!4 & sel) #4e90f7ff
> color (#!4 & sel) #4e8ff7ff
> color (#!4 & sel) #4e8cf7ff
> color (#!4 & sel) #4d8bf7ff
> color (#!4 & sel) #4d89f7ff
> color (#!4 & sel) #4d87f7ff
> color (#!4 & sel) #4d86f7ff
> color (#!4 & sel) #4c84f7ff
> color (#!4 & sel) #4c82f7ff
> color (#!4 & sel) #4a7ff7ff
> color (#!4 & sel) #4a7df7ff
> color (#!4 & sel) #497df7ff
> color (#!4 & sel) #487bf7ff
> color (#!4 & sel) #477af7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4477f7ff
> color (#!4 & sel) #4273f7ff
> color (#!4 & sel) #406df7ff
> color (#!4 & sel) #3e67f7ff
> color (#!4 & sel) #3d60f7ff
> color (#!4 & sel) #3d5cf7ff
> color (#!4 & sel) #3d59f7ff
> color (#!4 & sel) #3d56f7ff
> color (#!4 & sel) #3d55f7ff
> color (#!4 & sel) #3d54f7ff
> color (#!4 & sel) #3c54f7ff
> color (#!4 & sel) #3b52f7ff
> color (#!4 & sel) #3c50f7ff
> color (#!4 & sel) #3e4ef7ff
> color (#!4 & sel) #424df7ff
> color (#!4 & sel) #434cf7ff
> color (#!4 & sel) #444bf7ff
> color (#!4 & sel) #454cf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #454df7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #434df7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4352f7ff
> color (#!4 & sel) #496af7ff
> color (#!4 & sel) #4d79f7ff
> color (#!4 & sel) #5286f7ff
> color (#!4 & sel) #5790f7ff
> color (#!4 & sel) #5995f7ff
> color (#!4 & sel) #5a98f7ff
> color (#!4 & sel) #5b9af7ff
> color (#!4 & sel) #5b9bf7ff
> color (#!4 & sel) #5a9bf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #589ef7ff
> color (#!4 & sel) #56a0f7ff
> color (#!4 & sel) #55a1f7ff
> color (#!4 & sel) #54a1f7ff
> color (#!4 & sel) #51a1f7ff
> color (#!4 & sel) #4da2f7ff
> color (#!4 & sel) #49a2f7ff
> color (#!4 & sel) #47a3f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #46a3f7ff
> color (#!4 & sel) #46a4f7ff
> color (#!4 & sel) #46a5f7ff
> color (#!4 & sel) #46a6f7ff
> color (#!4 & sel) #46a5f7ff
> color (#!4 & sel) #4aa0f7ff
> color (#!4 & sel) #528df7ff
> color (#!4 & sel) #5481f7ff
> color (#!4 & sel) #5377f7ff
> color (#!4 & sel) #516ff7ff
> color (#!4 & sel) #506af7ff
> color (#!4 & sel) #526df7ff
> color (#!4 & sel) #5f83f7ff
> color (#!4 & sel) #668ff7ff
> color (#!4 & sel) #6b95f7ff
> color (#!4 & sel) #6e98f7ff
> color (#!4 & sel) #709af7ff
> color (#!4 & sel) #729af7ff
> color (#!4 & sel) #7398f7ff
> color (#!4 & sel) #7496f7ff
> color (#!4 & sel) #7492f7ff
> color (#!4 & sel) #738ff7ff
> color (#!4 & sel) #728cf7ff
> color (#!4 & sel) #728bf7ff
> color (#!4 & sel) #728af7ff
> color (#!4 & sel) #7189f7ff
> color (#!4 & sel) #7188f7ff
> color (#!4 & sel) #7187f7ff
> color (#!4 & sel) #7186f7ff
> color (#!4 & sel) #7084f7ff
> color (#!4 & sel) #6f81f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6e80f7ff
> color (#!4 & sel) #6e7ff7ff
> color (#!4 & sel) #6d7ef7ff
> color (#!4 & sel) #6d7df7ff
> color (#!4 & sel) #6b7bf7ff
> color (#!4 & sel) #6b7af7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6a78f7ff
> color (#!4 & sel) #6977f7ff
> color (#!4 & sel) #6874f7ff
> color (#!4 & sel) #6873f7ff
> color (#!4 & sel) #6772f7ff
> color (#!4 & sel) #656df7ff
> color (#!4 & sel) #656cf7ff
> color (#!4 & sel) #646bf7ff
> color (#!4 & sel) #636bf7ff
> color (#!4 & sel) #636af7ff
> color (#!4 & sel) #6267f7ff
> color (#!4 & sel) #6163f7ff
> color (#!4 & sel) #5f61f7ff
> color (#!4 & sel) #5e5ff7ff
> color (#!4 & sel) #5e5ef7ff
> color (#!4 & sel) #5d5df7ff
> color (#!4 & sel) #5d5cf7ff
> color (#!4 & sel) #5e5cf7ff
> color (#!4 & sel) #5e5bf7ff
> select #4/B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #5e5bf7ff
> color (#!4 & sel) #5e64f7ff
> color (#!4 & sel) #5e6ff7ff
> color (#!4 & sel) #5e70f7ff
> color (#!4 & sel) #5e72f7ff
> color (#!4 & sel) #5e80f7ff
> color (#!4 & sel) #5e8af7ff
> color (#!4 & sel) #5e8ef7ff
> color (#!4 & sel) #5e90f7ff
> color (#!4 & sel) #5e92f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5e8ef7ff
> color (#!4 & sel) #5e82f7ff
> color (#!4 & sel) #5e73f7ff
> color (#!4 & sel) #5e6ff7ff
> color (#!4 & sel) #5e6cf7ff
> color (#!4 & sel) #5e66f7ff
> color (#!4 & sel) #5e60f7ff
> color (#!4 & sel) #5e5cf7ff
> color (#!4 & sel) #5e5af7ff
> color (#!4 & sel) #5e56f7ff
> color (#!4 & sel) #5e54f7ff
> color (#!4 & sel) #5e51f7ff
> color (#!4 & sel) #5e4cf7ff
> color (#!4 & sel) #5e4af7ff
> color (#!4 & sel) #5e47f7ff
> color (#!4 & sel) #5e45f7ff
> color (#!4 & sel) #5e43f7ff
> color (#!4 & sel) #5e5cf7ff
> color (#!4 & sel) #5e75f7ff
> color (#!4 & sel) #5e76f7ff
> color (#!4 & sel) #5e6bf7ff
> color (#!4 & sel) #5e65f7ff
> color (#!4 & sel) #5e62f7ff
> color (#!4 & sel) #5e61f7ff
> color (#!4 & sel) #5e60f7ff
> color (#!4 & sel) #5e61f7ff
> color (#!4 & sel) #5e6bf7ff
> color (#!4 & sel) #5e71f7ff
> color (#!4 & sel) #5e74f7ff
> color (#!4 & sel) #5e76f7ff
> color (#!4 & sel) #5e79f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5e7bf7ff
> color (#!4 & sel) #5e7df7ff
> color (#!4 & sel) #5e7ff7ff
> color (#!4 & sel) #5e80f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5d80f7ff
> color (#!4 & sel) #5b80f7ff
> color (#!4 & sel) #5880f7ff
> color (#!4 & sel) #5680f7ff
> color (#!4 & sel) #5480f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5380f7ff
> color (#!4 & sel) #5180f7ff
> color (#!4 & sel) #4f80f7ff
> color (#!4 & sel) #4d80f7ff
> color (#!4 & sel) #4c80f7ff
> color (#!4 & sel) #4b80f7ff
> color (#!4 & sel) #4a80f7ff
> color (#!4 & sel) #4b80f7ff
> color (#!4 & sel) #6780f7ff
> color (#!4 & sel) #6b80f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #7180f7ff
> color (#!4 & sel) #7680f7ff
> color (#!4 & sel) #7d80f7ff
> color (#!4 & sel) #8080f7ff
> color (#!4 & sel) #8880f7ff
> color (#!4 & sel) #8b80f7ff
> color (#!4 & sel) #8c80f7ff
> color (#!4 & sel) #8d80f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #8c80f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #8b80f7ff
> color (#!4 & sel) #8a80f7ff
> color (#!4 & sel) #8680f7ff
> color (#!4 & sel) #7e80f7ff
> color (#!4 & sel) #7180f7ff
> color (#!4 & sel) #6c80f7ff
> color (#!4 & sel) #6480f7ff
> color (#!4 & sel) #6180f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6080f7ff
> color (#!4 & sel) #5f80f7ff
> color (#!4 & sel) #5d80f7ff
> color (#!4 & sel) #5b80f7ff
> color (#!4 & sel) #5a80f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5980f7ff
> color (#!4 & sel) #5386f7ff
> color (#!4 & sel) #5586f7ff
> color (#!4 & sel) #5986f7ff
> color (#!4 & sel) #5f86f7ff
> color (#!4 & sel) #6186f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6386f7ff
> color (#!4 & sel) #6486f7ff
> color (#!4 & sel) #6786f7ff
> color (#!4 & sel) #6985f7ff
> color (#!4 & sel) #6a85f7ff
> color (#!4 & sel) #6c85f7ff
> color (#!4 & sel) #6e84f7ff
> color (#!4 & sel) #6f84f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6f83f7ff
> color (#!4 & sel) #7083f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #7183f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #7182f7ff
> color (#!4 & sel) #7181f7ff
> color (#!4 & sel) #7081f7ff
> color (#!4 & sel) #7080f7ff
> color (#!4 & sel) #707ff7ff
> color (#!4 & sel) #6f7df7ff
> color (#!4 & sel) #6f7cf7ff
> color (#!4 & sel) #6f7af7ff
> color (#!4 & sel) #7078f7ff
> color (#!4 & sel) #7277f7ff
> color (#!4 & sel) #7377f7ff
> color (#!4 & sel) #7477f7ff
> color (#!4 & sel) #7476f7ff
> color (#!4 & sel) #7577f7ff
> color (#!4 & sel) #7677f7ff
> color (#!4 & sel) #7678f7ff
> color (#!4 & sel) #7779f7ff
> color (#!4 & sel) #797bf7ff
> color (#!4 & sel) #7c7ef7ff
> color (#!4 & sel) #7e80f7ff
> color (#!4 & sel) #7f80f7ff
> color (#!4 & sel) #8081f7ff
> color (#!4 & sel) #8182f7ff
> color (#!4 & sel) #8282f7ff
> color (#!4 & sel) #8382f7ff
> color (#!4 & sel) #8383f7ff
> color (#!4 & sel) #8483f7ff
> color (#!4 & sel) #8586f7ff
> color (#!4 & sel) #858ef7ff
> color (#!4 & sel) #8297f7ff
> color (#!4 & sel) #819bf7ff
> color (#!4 & sel) #7f9cf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #7e9cf7ff
> color (#!4 & sel) #7c9df7ff
> color (#!4 & sel) #799bf7ff
> color (#!4 & sel) #7296f7ff
> color (#!4 & sel) #6b90f7ff
> color (#!4 & sel) #6487f7ff
> color (#!4 & sel) #6183f7ff
> color (#!4 & sel) #5c7ef7ff
> color (#!4 & sel) #5a7bf7ff
> color (#!4 & sel) #5979f7ff
> color (#!4 & sel) #5778f7ff
> color (#!4 & sel) #5677f7ff
> color (#!4 & sel) #5475f7ff
> color (#!4 & sel) #5273f7ff
> color (#!4 & sel) #4f73f7ff
> color (#!4 & sel) #4d74f7ff
> color (#!4 & sel) #4c74f7ff
> color (#!4 & sel) #4c75f7ff
> color (#!4 & sel) #4b75f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4772f7ff
> color (#!4 & sel) #446ff7ff
> color (#!4 & sel) #416bf7ff
> color (#!4 & sel) #4069f7ff
> color (#!4 & sel) #3e66f7ff
> color (#!4 & sel) #3c63f7ff
> color (#!4 & sel) #3b61f7ff
> color (#!4 & sel) #3a5cf7ff
> color (#!4 & sel) #395bf7ff
> color (#!4 & sel) #3959f7ff
> color (#!4 & sel) #3958f7ff
> color (#!4 & sel) #3957f7ff
> color (#!4 & sel) #3958f7ff
> undo
[Repeated 2 time(s)]
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #3f69f7ff
> color (#!4 & sel) #436af7ff
> color (#!4 & sel) #466cf7ff
> color (#!4 & sel) #5987f7ff
> color (#!4 & sel) #7ab4f7ff
> color (#!4 & sel) #81bef7ff
> color (#!4 & sel) #84c0f7ff
> color (#!4 & sel) #85c0f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #86bff7ff
> color (#!4 & sel) #87bef7ff
> color (#!4 & sel) #88bdf7ff
> color (#!4 & sel) #88bbf7ff
> color (#!4 & sel) #88b8f7ff
> color (#!4 & sel) #86b4f7ff
> color (#!4 & sel) #85b1f7ff
> color (#!4 & sel) #82aef7ff
> color (#!4 & sel) #80abf7ff
> color (#!4 & sel) #7ca7f7ff
> color (#!4 & sel) #79a3f7ff
> color (#!4 & sel) #77a1f7ff
> color (#!4 & sel) #759ff7ff
> color (#!4 & sel) #749ef7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #749df7ff
> color (#!4 & sel) #739cf7ff
> color (#!4 & sel) #729bf7ff
> color (#!4 & sel) #709af7ff
> color (#!4 & sel) #6f9af7ff
> color (#!4 & sel) #6e99f7ff
> color (#!4 & sel) #6d99f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #70a7f7ff
> color (#!4 & sel) #71adf7ff
> color (#!4 & sel) #72b0f7ff
> color (#!4 & sel) #72b2f7ff
> color (#!4 & sel) #73b3f7ff
> color (#!4 & sel) #73b6f7ff
> color (#!4 & sel) #73b9f7ff
> color (#!4 & sel) #73bbf7ff
> color (#!4 & sel) #73bef7ff
> color (#!4 & sel) #71c1f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #72c0f7ff
> color (#!4 & sel) #73bef7ff
> color (#!4 & sel) #74bbf7ff
> color (#!4 & sel) #76b8f7ff
> color (#!4 & sel) #77b2f7ff
> color (#!4 & sel) #75a8f7ff
> color (#!4 & sel) #72a2f7ff
> color (#!4 & sel) #719ef7ff
> color (#!4 & sel) #719df7ff
> color (#!4 & sel) #709bf7ff
> color (#!4 & sel) #7099f7ff
> color (#!4 & sel) #7097f7ff
> color (#!4 & sel) #7195f7ff
> color (#!4 & sel) #7494f7ff
> color (#!4 & sel) #7694f7ff
> color (#!4 & sel) #7892f7ff
> color (#!4 & sel) #7a92f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #7b92f7ff
> color (#!4 & sel) #7c91f7ff
> color (#!4 & sel) #7d91f7ff
> color (#!4 & sel) #7e90f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #7e91f7ff
> color (#!4 & sel) #7e92f7ff
> color (#!4 & sel) #7d93f7ff
> color (#!4 & sel) #7c93f7ff
> color (#!4 & sel) #7a93f7ff
> color (#!4 & sel) #7893f7ff
> color (#!4 & sel) #7793f7ff
> color (#!4 & sel) #7391f7ff
> color (#!4 & sel) #7090f7ff
> color (#!4 & sel) #6d8ef7ff
> color (#!4 & sel) #6b8cf7ff
> color (#!4 & sel) #6a8cf7ff
> color (#!4 & sel) #688bf7ff
> color (#!4 & sel) #678af7ff
> color (#!4 & sel) #668af7ff
> color (#!4 & sel) #6589f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #6389f7ff
> color (#!4 & sel) #6189f7ff
> color (#!4 & sel) #6089f7ff
> color (#!4 & sel) #5e88f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #5d89f7ff
> color (#!4 & sel) #5c89f7ff
> color (#!4 & sel) #5b89f7ff
> color (#!4 & sel) #5989f7ff
> color (#!4 & sel) #5889f7ff
> color (#!4 & sel) #568af7ff
> color (#!4 & sel) #558af7ff
> color (#!4 & sel) #548af7ff
> color (#!4 & sel) #528af7ff
> color (#!4 & sel) #508af7ff
> color (#!4 & sel) #4e8bf7ff
> color (#!4 & sel) #4d8bf7ff
> color (#!4 & sel) #4c8bf7ff
> color (#!4 & sel) #4b8bf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4a8bf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4a8cf7ff
> color (#!4 & sel) #4a8df7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #498ef7ff
> color (#!4 & sel) #4a8df7ff
> color (#!4 & sel) #4a8cf7ff
> color (#!4 & sel) #498bf7ff
> color (#!4 & sel) #498af7ff
> color (#!4 & sel) #4989f7ff
> color (#!4 & sel) #4988f7ff
> color (#!4 & sel) #4986f7ff
> color (#!4 & sel) #4c81f7ff
> color (#!4 & sel) #517df7ff
> color (#!4 & sel) #577bf7ff
> color (#!4 & sel) #5a78f7ff
> color (#!4 & sel) #5c77f7ff
> color (#!4 & sel) #5e75f7ff
> color (#!4 & sel) #6371f7ff
> color (#!4 & sel) #666df7ff
> color (#!4 & sel) #686bf7ff
> color (#!4 & sel) #6d6af7ff
> color (#!4 & sel) #736af7ff
> color (#!4 & sel) #786cf7ff
> color (#!4 & sel) #816bf7ff
> color (#!4 & sel) #8768f7ff
> color (#!4 & sel) #8c64f7ff
> color (#!4 & sel) #8e61f7ff
> color (#!4 & sel) #8d5ff7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #8562f7ff
> color (#!4 & sel) #6769f7ff
> color (#!4 & sel) #6575f7ff
> color (#!4 & sel) #6178f7ff
> color (#!4 & sel) #5d79f7ff
> color (#!4 & sel) #5778f7ff
> color (#!4 & sel) #5376f7ff
> color (#!4 & sel) #5075f7ff
> color (#!4 & sel) #4c73f7ff
> color (#!4 & sel) #4873f7ff
> color (#!4 & sel) #4271f7ff
> color (#!4 & sel) #1e6ef7ff
> color (#!4 & sel) #0071f7ff
> color (#!4 & sel) #0074f7ff
> color (#!4 & sel) #0071f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #006ff7ff
> color (#!4 & sel) #016ff7ff
> color (#!4 & sel) #026ff7ff
> color (#!4 & sel) #0470f7ff
> color (#!4 & sel) #0471f7ff
> color (#!4 & sel) #0672f7ff
> color (#!4 & sel) #0974f7ff
> color (#!4 & sel) #0b75f7ff
> color (#!4 & sel) #0f78f7ff
> color (#!4 & sel) #1078f7ff
> color (#!4 & sel) #137bf7ff
> color (#!4 & sel) #157df7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1780f7ff
> color (#!4 & sel) #1883f7ff
> color (#!4 & sel) #1985f7ff
> color (#!4 & sel) #1b89f7ff
> color (#!4 & sel) #1d8cf7ff
> color (#!4 & sel) #1e8ff7ff
> color (#!4 & sel) #1d8ff7ff
> color (#!4 & sel) #1e91f7ff
> color (#!4 & sel) #1f93f7ff
> color (#!4 & sel) #1f94f7ff
> color (#!4 & sel) #1f98f7ff
> color (#!4 & sel) #2099f7ff
[Repeated 2 time(s)]
> color (#!4 & sel) #2197f7ff
> color (#!4 & sel) #2295f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #2294f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #2293f7ff
> color (#!4 & sel) #2292f7ff
> color (#!4 & sel) #2191f7ff
> color (#!4 & sel) #2091f7ff
> color (#!4 & sel) #2090f7ff
> color (#!4 & sel) #1f8ff7ff
> color (#!4 & sel) #1e8ef7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1d8df7ff
> color (#!4 & sel) #1c8cf7ff
> color (#!4 & sel) #1c8bf7ff
> color (#!4 & sel) #1b8af7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1b88f7ff
> color (#!4 & sel) #1a88f7ff
> color (#!4 & sel) #1a87f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1a86f7ff
> color (#!4 & sel) #1986f7ff
> color (#!4 & sel) #1985f7ff
> color (#!4 & sel) #1884f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1783f7ff
> color (#!4 & sel) #1681f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1680f7ff
> color (#!4 & sel) #157ef7ff
> color (#!4 & sel) #167df7ff
> color (#!4 & sel) #167cf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #157bf7ff
> color (#!4 & sel) #1579f7ff
> color (#!4 & sel) #1678f7ff
> color (#!4 & sel) #1677f7ff
> color (#!4 & sel) #1675f7ff
> color (#!4 & sel) #1774f7ff
> color (#!4 & sel) #1873f7ff
> color (#!4 & sel) #1972f7ff
> color (#!4 & sel) #1a72f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #1c73f7ff
> color (#!4 & sel) #217bf7ff
> color (#!4 & sel) #237ef7ff
> color (#!4 & sel) #2584f7ff
> color (#!4 & sel) #2685f7ff
> color (#!4 & sel) #2787f7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #2888f7ff
> color (#!4 & sel) #2783efff
[Repeated 1 time(s)]
> color (#!4 & sel) #2683eeff
> color (#!4 & sel) #2681eaff
> color (#!4 & sel) #2580e8ff
> color (#!4 & sel) #257ee5ff
> color (#!4 & sel) #247ce2ff
> color (#!4 & sel) #247adeff
> color (#!4 & sel) #2479ddff
> color (#!4 & sel) #2378daff
> color (#!4 & sel) #2376d7ff
> color (#!4 & sel) #2375d6ff
> color (#!4 & sel) #2275d4ff
> color (#!4 & sel) #2274d4ff
> color (#!4 & sel) #2273d2ff
> color (#!4 & sel) #2273d1ff
> color (#!4 & sel) #2272d0ff
> color (#!4 & sel) #2171ceff
> color (#!4 & sel) #216fcaff
> color (#!4 & sel) #206cc4ff
> color (#!4 & sel) #1e68bcff
> color (#!4 & sel) #1e64b7ff
> color (#!4 & sel) #1d62b3ff
> color (#!4 & sel) #1d61b1ff
> color (#!4 & sel) #1c61b0ff
> color (#!4 & sel) #1c60afff
> color (#!4 & sel) #1c5fadff
> color (#!4 & sel) #1b5ba6ff
> color (#!4 & sel) #174e8eff
> color (#!4 & sel) #134074ff
> color (#!4 & sel) #103866ff
> color (#!4 & sel) #0f345fff
> color (#!4 & sel) #0f3560ff
> color (#!4 & sel) #113867ff
> color (#!4 & sel) #14437aff
> color (#!4 & sel) #1e65b8ff
> color (#!4 & sel) #2889faff
> color (#!4 & sel) #298cffff
> color (#!4 & sel) #75fbf6ff
[Repeated 2 time(s)]
> color (#!4 & sel) #74faf7ff
[Repeated 1 time(s)]
> color (#!4 & sel) #74faf6ff
[Repeated 1 time(s)]
> color (#!4 & sel) #74f9f4ff
> color (#!4 & sel) #74faf4ff
> color (#!4 & sel) #74faf5ff
> color (#!4 & sel) #74faf4ff
> color (#!4 & sel) #76faeeff
> color (#!4 & sel) #76f1faff
> color (#!4 & sel) #75e7faff
> color (#!4 & sel) #71d3faff
> color (#!4 & sel) #66b7faff
> color (#!4 & sel) #5ea8faff
> color (#!4 & sel) #559afaff
> color (#!4 & sel) #4387faff
> color (#!4 & sel) #3c81faff
> color (#!4 & sel) #367efaff
> color (#!4 & sel) #347dfaff
> color (#!4 & sel) #327bfaff
> color (#!4 & sel) #2f7afaff
> color (#!4 & sel) #2d79faff
> color (#!4 & sel) #2c79faff
> color (#!4 & sel) #2b78faff
> color (#!4 & sel) #2978faff
[Repeated 1 time(s)]
> color (#!4 & sel) #297afaff
> color (#!4 & sel) #2e80faff
> color (#!4 & sel) #3187faff
> color (#!4 & sel) #338cfaff
> color (#!4 & sel) #3592faff
> color (#!4 & sel) #3695faff
> color (#!4 & sel) #3797faff
> color (#!4 & sel) #3697faff
[Repeated 1 time(s)]
> color (#!4 & sel) #3596faff
> color (#!4 & sel) #3394faff
> color (#!4 & sel) #3293faff
> color (#!4 & sel) #3191faff
> color (#!4 & sel) #2f8ffaff
> color (#!4 & sel) #2e8dfaff
> color (#!4 & sel) #2c8bfaff
> color (#!4 & sel) #2c8afaff
> color (#!4 & sel) #2c89faff
> color (#!4 & sel) #2b88faff
> color (#!4 & sel) #2b87faff
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #2b88faff
> color (#!4 & sel) #2b8dfaff
> color (#!4 & sel) #2b8ffaff
> color (#!4 & sel) #2b91faff
> color (#!4 & sel) #2b93faff
> color (#!4 & sel) #2b95faff
> color (#!4 & sel) #2b96faff
> color (#!4 & sel) #2b97faff
> color (#!4 & sel) #2b9afaff
> color (#!4 & sel) #2b9dfaff
> color (#!4 & sel) #2ba0faff
> color (#!4 & sel) #2ba3faff
> color (#!4 & sel) #2ba7faff
> color (#!4 & sel) #2ba9faff
> color (#!4 & sel) #2babfaff
> color (#!4 & sel) #2baefaff
> color (#!4 & sel) #2baffaff
> color (#!4 & sel) #2bb1faff
> color (#!4 & sel) #2bb3faff
> color (#!4 & sel) #2bb5faff
> color (#!4 & sel) #2bb7faff
> color (#!4 & sel) #2bb9faff
> color (#!4 & sel) #2bbcfaff
> color (#!4 & sel) #2bbefaff
> color (#!4 & sel) #2bc0faff
> color (#!4 & sel) #2bc2faff
> color (#!4 & sel) #2bc4faff
> color (#!4 & sel) #2bc6faff
> color (#!4 & sel) #2bc8faff
> color (#!4 & sel) #2bc9faff
[Repeated 1 time(s)]
> color (#!4 & sel) #2bcafaff
> color (#!4 & sel) #2bcbfaff
[Repeated 2 time(s)]
> color (#!4 & sel) #2bcafaff
> color (#!4 & sel) #2bc9faff
> color (#!4 & sel) #2bc7faff
> color (#!4 & sel) #2bc6faff
> color (#!4 & sel) #2bc4faff
> color (#!4 & sel) #2bc1faff
> color (#!4 & sel) #2bbefaff
> color (#!4 & sel) #2bbbfaff
> color (#!4 & sel) #2bb8faff
> color (#!4 & sel) #2bb6faff
> color (#!4 & sel) #2bb4faff
> color (#!4 & sel) #2bb3faff
[Repeated 2 time(s)]
> color (#!4 & sel) #2bb4faff
> color (#!4 & sel) #2bb6faff
> color (#!4 & sel) #2bb8faff
> color (#!4 & sel) #2bbafaff
> color (#!4 & sel) #2bbcfaff
> color (#!4 & sel) #2bbdfaff
> color (#!4 & sel) #2bbefaff
> color (#!4 & sel) #2bbffaff
> color (#!4 & sel) #2bc1faff
[Repeated 1 time(s)]
> color (#!4 & sel) #2bc2faff
[Repeated 1 time(s)]
> color (#!4 & sel) #2bc3faff
> color (#!4 & sel) #2bc4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #2cc4faff
> color (#!4 & sel) #2dc4faff
> color (#!4 & sel) #2fc4faff
> color (#!4 & sel) #30c4faff
> color (#!4 & sel) #32c4faff
> color (#!4 & sel) #34c4faff
> color (#!4 & sel) #36c4faff
> color (#!4 & sel) #37c4faff
> color (#!4 & sel) #38c4faff
> color (#!4 & sel) #39c4faff
> color (#!4 & sel) #3ac4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #3cc4faff
> color (#!4 & sel) #3ec4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #3fc4faff
> color (#!4 & sel) #41c4faff
> color (#!4 & sel) #42c4faff
> color (#!4 & sel) #43c4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #45c4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #46c4faff
> color (#!4 & sel) #48c4faff
> color (#!4 & sel) #49c4faff
> color (#!4 & sel) #4bc4faff
> color (#!4 & sel) #4cc4faff
> color (#!4 & sel) #4ec4faff
> color (#!4 & sel) #50c4faff
> color (#!4 & sel) #52c4faff
> color (#!4 & sel) #54c4faff
> color (#!4 & sel) #55c4faff
> color (#!4 & sel) #57c4faff
> color (#!4 & sel) #5ac4faff
> color (#!4 & sel) #5bc4faff
> color (#!4 & sel) #5dc4faff
> color (#!4 & sel) #60c4faff
> color (#!4 & sel) #62c4faff
> color (#!4 & sel) #64c4faff
> color (#!4 & sel) #67c4faff
> color (#!4 & sel) #69c4faff
> color (#!4 & sel) #6bc4faff
> color (#!4 & sel) #6cc4faff
> color (#!4 & sel) #6dc4faff
> color (#!4 & sel) #6cc4faff
> color (#!4 & sel) #6ac4faff
> color (#!4 & sel) #68c4faff
> color (#!4 & sel) #65c4faff
> color (#!4 & sel) #60c4faff
> color (#!4 & sel) #50c4faff
> color (#!4 & sel) #49c4faff
> color (#!4 & sel) #45c4faff
> color (#!4 & sel) #42c4faff
> color (#!4 & sel) #41c4faff
> color (#!4 & sel) #3ec4faff
> color (#!4 & sel) #3cc4faff
> color (#!4 & sel) #39c4faff
> color (#!4 & sel) #37c4faff
> color (#!4 & sel) #36c4faff
> color (#!4 & sel) #35c4faff
> color (#!4 & sel) #33c4faff
> color (#!4 & sel) #30c4faff
> color (#!4 & sel) #2ec4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #30c4faff
> color (#!4 & sel) #34c4faff
> color (#!4 & sel) #35c4faff
> color (#!4 & sel) #38c4faff
> color (#!4 & sel) #39c4faff
> color (#!4 & sel) #3ac4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #3cc4faff
> color (#!4 & sel) #3ec4faff
> color (#!4 & sel) #3fc4faff
> color (#!4 & sel) #42c4faff
> color (#!4 & sel) #45c4faff
> color (#!4 & sel) #46c4faff
> color (#!4 & sel) #48c4faff
> color (#!4 & sel) #4ac4faff
> color (#!4 & sel) #4dc4faff
[Repeated 1 time(s)]
> color (#!4 & sel) #4ec4faff
> color (#!4 & sel) #50c4faff
> color (#!4 & sel) #4fc3faff
> color (#!4 & sel) #4fc3f9ff
> color (#!4 & sel) #4ec1f7ff
> color (#!4 & sel) #4dbff5ff
> color (#!4 & sel) #4dbef4ff
> color (#!4 & sel) #4cbdf2ff
> color (#!4 & sel) #4bbbefff
> color (#!4 & sel) #4bbaeeff
> color (#!4 & sel) #4ab8ecff
> color (#!4 & sel) #4ab6eaff
> color (#!4 & sel) #49b5e8ff
> color (#!4 & sel) #49b4e7ff
> color (#!4 & sel) #48b2e4ff
> color (#!4 & sel) #47b0e2ff
> color (#!4 & sel) #47afe0ff
> color (#!4 & sel) #46aedfff
> color (#!4 & sel) #46addeff
> color (#!4 & sel) #45acdcff
> color (#!4 & sel) #45aadaff
> color (#!4 & sel) #44a8d7ff
> color (#!4 & sel) #43a7d5ff
> color (#!4 & sel) #43a5d4ff
> color (#!4 & sel) #42a3d1ff
> color (#!4 & sel) #41a2cfff
> color (#!4 & sel) #40a0cdff
> color (#!4 & sel) #409fcbff
> color (#!4 & sel) #409ecbff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select #4/D
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #409ecbff
> color (#!4 & sel) #2b87faff
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #2d97faff
> color (#!4 & sel) #2e97faff
> color (#!4 & sel) #2e98faff
> color (#!4 & sel) #2f98faff
> color (#!4 & sel) #3198faff
> color (#!4 & sel) #3398faff
> color (#!4 & sel) #3598faff
> color (#!4 & sel) #3898faff
> color (#!4 & sel) #3b98faff
> color (#!4 & sel) #3e98faff
> color (#!4 & sel) #3f98faff
> color (#!4 & sel) #4199faff
> color (#!4 & sel) #4299faff
> color (#!4 & sel) #479bfaff
> color (#!4 & sel) #4b9cfaff
> color (#!4 & sel) #4d9dfaff
> color (#!4 & sel) #4f9efaff
> color (#!4 & sel) #52a0faff
> color (#!4 & sel) #54a1faff
> color (#!4 & sel) #56a2faff
[Repeated 1 time(s)]
> color (#!4 & sel) #57a2faff
> color (#!4 & sel) #58a3faff
> color (#!4 & sel) #5aa5faff
> color (#!4 & sel) #5ba5faff
> color (#!4 & sel) #5ca5faff
> color (#!4 & sel) #5ea6faff
> color (#!4 & sel) #61a8faff
> color (#!4 & sel) #66aafaff
> color (#!4 & sel) #67aafaff
[Repeated 1 time(s)]
> color (#!4 & sel) #69acfaff
> color (#!4 & sel) #6aadfaff
> color (#!4 & sel) #6badfaff
> color (#!4 & sel) #6caefaff
> color (#!4 & sel) #6caffaff
> color (#!4 & sel) #6daffaff
> color (#!4 & sel) #6fb0faff
> color (#!4 & sel) #6fb1faff
> color (#!4 & sel) #71b2faff
> color (#!4 & sel) #74b4faff
> color (#!4 & sel) #76b4faff
> color (#!4 & sel) #78b5faff
> color (#!4 & sel) #7ab6faff
> color (#!4 & sel) #7bb7faff
[Repeated 1 time(s)]
> color (#!4 & sel) #7cb7faff
> color (#!4 & sel) #7eb8faff
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #7eb8faff
[Repeated 3 time(s)]
> color (#!4 & sel) #7eb8fafd
> color (#!4 & sel) #7eb8fafb
[Repeated 1 time(s)]
> color (#!4 & sel) #7eb8fafe
> color (#!4 & sel) #7eb8faff
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> select #4/B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #7eb8faff
> color (#!4 & sel) #7eb8fafe
> color (#!4 & sel) #7eb8fafb
> color (#!4 & sel) #7eb8faff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select ::name="UNL"
260 atoms, 276 bonds, 4 residues, 1 model selected
> color sel #73fcd6ff
> select
> ::name="AM2"::name="CA"::name="POV"::name="PTY"::name="UNL"::name="Y01"::name="YZY"::name="ZN"
1520 atoms, 1536 bonds, 52 residues, 2 models selected
> show (#!4 & sel) target ab
> select add #4
23424 atoms, 23968 bonds, 32 pseudobonds, 2740 residues, 4 models selected
> select subtract #4
632 atoms, 640 bonds, 24 residues, 1 model selected
> color #4 byhetero
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) light sea green
> color (#!4 & sel) #009193ff
> select #4/D
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #009193ff
> color (#!4 & sel) #009193fb
[Repeated 1 time(s)]
> color (#!4 & sel) #009193ff
> select #4/B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #409091ff
[Repeated 1 time(s)]
> color (#!4 & sel) #418f91ff
> color (#!4 & sel) #418d91ff
> color (#!4 & sel) #418b91ff
> color (#!4 & sel) #418a91ff
> color (#!4 & sel) #418991ff
> color (#!4 & sel) #418891ff
> color (#!4 & sel) #418791ff
> color (#!4 & sel) #418591ff
> color (#!4 & sel) #418491ff
[Repeated 1 time(s)]
> color (#!4 & sel) #418391ff
[Repeated 1 time(s)]
> color (#!4 & sel) #418291ff
[Repeated 1 time(s)]
> color (#!4 & sel) #418391ff
> color (#!4 & sel) #428891ff
> color (#!4 & sel) #418c91ff
> color (#!4 & sel) #408e91ff
> color (#!4 & sel) #409091ff
> color (#!4 & sel) #3f9191ff
> color (#!4 & sel) #3f9190ff
> color (#!4 & sel) #3e918fff
> color (#!4 & sel) #3d918eff
> color (#!4 & sel) #3c918dff
> color (#!4 & sel) #3c918bff
> color (#!4 & sel) #3c9189ff
[Repeated 1 time(s)]
> color (#!4 & sel) #3c9188ff
> color (#!4 & sel) #3c9187ff
[Repeated 1 time(s)]
> color (#!4 & sel) #3b9186ff
> color (#!4 & sel) #3b9185ff
> color (#!4 & sel) #3b9184ff
> color (#!4 & sel) #3b9183ff
> color (#!4 & sel) #3b9182ff
> color (#!4 & sel) #3a9180ff
> color (#!4 & sel) #3a917eff
> color (#!4 & sel) #3a917dff
> color (#!4 & sel) #39917dff
> color (#!4 & sel) #39917cff
> color (#!4 & sel) #38917bff
> color (#!4 & sel) #37917aff
> color (#!4 & sel) #369179ff
[Repeated 1 time(s)]
> color (#!4 & sel) #359179ff
> color (#!4 & sel) #349179ff
[Repeated 1 time(s)]
> color (#!4 & sel) #339179ff
[Repeated 1 time(s)]
> color (#!4 & sel) #329179ff
[Repeated 1 time(s)]
> color (#!4 & sel) #319179ff
[Repeated 1 time(s)]
> color (#!4 & sel) #309179ff
> color (#!4 & sel) #2e9178ff
> color (#!4 & sel) #2d9178ff
[Repeated 2 time(s)]
> color (#!4 & sel) #2c9177ff
> color (#!4 & sel) #2b9177ff
> color (#!4 & sel) #299175ff
> color (#!4 & sel) #279174ff
> color (#!4 & sel) #269173ff
[Repeated 2 time(s)]
> color (#!4 & sel) #259172ff
> color (#!4 & sel) #249171ff
[Repeated 2 time(s)]
> color (#!4 & sel) #249176ff
> color (#!4 & sel) #25917cff
> color (#!4 & sel) #279182ff
> color (#!4 & sel) #299186ff
> color (#!4 & sel) #2b918aff
> color (#!4 & sel) #2c918cff
> color (#!4 & sel) #2c918dff
> color (#!4 & sel) #2c918eff
> color (#!4 & sel) #2d918fff
> color (#!4 & sel) #2d9190ff
> color (#!4 & sel) #2d9191ff
> color (#!4 & sel) #2e9091ff
> color (#!4 & sel) #2e8f91ff
[Repeated 1 time(s)]
> color (#!4 & sel) #2e8e91ff
> color (#!4 & sel) #2e8e92ff
> color (#!4 & sel) #2f8f92ff
> color (#!4 & sel) #2f9194ff
> color (#!4 & sel) #309397ff
> color (#!4 & sel) #319699ff
> color (#!4 & sel) #32999dff
> color (#!4 & sel) #339ca0ff
> color (#!4 & sel) #339ea1ff
> color (#!4 & sel) #349fa2ff
> color (#!4 & sel) #349fa3ff
> color (#!4 & sel) #34a0a4ff
> color (#!4 & sel) #34a1a5ff
> color (#!4 & sel) #35a2a5ff
[Repeated 1 time(s)]
> color (#!4 & sel) #35a2a6ff
> color (#!4 & sel) #36a5a8ff
> color (#!4 & sel) #36a7abff
> color (#!4 & sel) #37a9acff
> color (#!4 & sel) #37a9adff
> color (#!4 & sel) #37aaaeff
> color (#!4 & sel) #38acb0ff
> color (#!4 & sel) #38adb1ff
> color (#!4 & sel) #39aeb2ff
> color (#!4 & sel) #39afb3ff
> color (#!4 & sel) #39b0b4ff
> color (#!4 & sel) #3ab1b5ff
> color (#!4 & sel) #3ab3b7ff
> color (#!4 & sel) #3bb5b9ff
> color (#!4 & sel) #3bb6baff
[Repeated 1 time(s)]
> color (#!4 & sel) #3bb6bbff
> color (#!4 & sel) #3cbabbff
> color (#!4 & sel) #3dbabbff
> color (#!4 & sel) #3ebabbff
> color (#!4 & sel) #40b9bbff
> color (#!4 & sel) #42b9bbff
> color (#!4 & sel) #45b8bbff
> color (#!4 & sel) #47b8bbff
> color (#!4 & sel) #4bb8bbff
> color (#!4 & sel) #4cb8bbff
> color (#!4 & sel) #4db8bbff
> color (#!4 & sel) #4fb8bbff
> color (#!4 & sel) #51b8bbff
> color (#!4 & sel) #52b7bbff
> color (#!4 & sel) #53b7bbff
> color (#!4 & sel) #54b7bbff
> color (#!4 & sel) #55b6bbff
[Repeated 1 time(s)]
> color (#!4 & sel) #56b6bbff
> color (#!4 & sel) #57b5bbff
> color (#!4 & sel) #58b5bbff
> color (#!4 & sel) #59b4bbff
> color (#!4 & sel) #5ab3bbff
> color (#!4 & sel) #5bb3bbff
> color (#!4 & sel) #5cb3bbff
> color (#!4 & sel) #5eb3bbff
> color (#!4 & sel) #62b2bbff
> color (#!4 & sel) #66b2bbff
> color (#!4 & sel) #69b2bbff
> color (#!4 & sel) #6ab2bbff
> color (#!4 & sel) #6bb2bbff
> color (#!4 & sel) #6cb2bbff
> color (#!4 & sel) #6cb1bbff
> color (#!4 & sel) #6dafbbff
> color (#!4 & sel) #6caebbff
> color (#!4 & sel) #6cacbbff
> color (#!4 & sel) #6baabbff
> color (#!4 & sel) #6ba6bbff
> color (#!4 & sel) #6ba4bbff
> color (#!4 & sel) #6ba2bbff
> color (#!4 & sel) #6ba1bbff
[Repeated 1 time(s)]
> color (#!4 & sel) #6aa0bbff
> color (#!4 & sel) #6b9fbbff
[Repeated 2 time(s)]
> color (#!4 & sel) #6ba6bbff
> color (#!4 & sel) #69abbbff
> color (#!4 & sel) #68adbbff
> color (#!4 & sel) #67b0bbff
> color (#!4 & sel) #66b1bbff
> color (#!4 & sel) #66b2bbff
> color (#!4 & sel) #64b4bbff
> color (#!4 & sel) #63b6bbff
> color (#!4 & sel) #62b8bbff
> color (#!4 & sel) #61b9bbff
> color (#!4 & sel) #60babbff
> color (#!4 & sel) #5fbbbaff
[Repeated 1 time(s)]
> color (#!4 & sel) #5ebbb9ff
> color (#!4 & sel) #5dbbb8ff
> color (#!4 & sel) #5cbbb8ff
> color (#!4 & sel) #59bbb8ff
> color (#!4 & sel) #57bbb8ff
> color (#!4 & sel) #55bbb8ff
> color (#!4 & sel) #53bbb8ff
> color (#!4 & sel) #52bbb9ff
[Repeated 1 time(s)]
> color (#!4 & sel) #51bbb9ff
[Repeated 1 time(s)]
> color (#!4 & sel) #50bbb8ff
[Repeated 1 time(s)]
> color (#!4 & sel) #4fbbb9ff
> color (#!4 & sel) #4ebbb9ff
> color (#!4 & sel) #4dbbbaff
[Repeated 2 time(s)]
> color (#!4 & sel) #4bbbbaff
> color (#!4 & sel) #4abbb9ff
> color (#!4 & sel) #4abbb8ff
> color (#!4 & sel) #49bbb8ff
[Repeated 1 time(s)]
> color (#!4 & sel) #48bbb7ff
> color (#!4 & sel) #47bbb6ff
[Repeated 1 time(s)]
> color (#!4 & sel) #46bbb5ff
> color (#!4 & sel) #45bbb4ff
[Repeated 1 time(s)]
> color (#!4 & sel) #44bbb4ff
> color (#!4 & sel) #44bbb3ff
[Repeated 1 time(s)]
> color (#!4 & sel) #43bbb2ff
[Repeated 1 time(s)]
> color (#!4 & sel) #43bab1ff
> color (#!4 & sel) #41b4acff
> color (#!4 & sel) #40b2a9ff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #40b2a9ff
> color (#!4 & sel) #40b2a9fb
> color (#!4 & sel) #40b2a9ef
[Repeated 1 time(s)]
> color (#!4 & sel) #40b2a9f2
[Repeated 1 time(s)]
> color (#!4 & sel) #40b2a9ff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select
> ::name="AM2"::name="CA"::name="POV"::name="PTY"::name="UNL"::name="Y01"::name="YZY"::name="ZN"
1520 atoms, 1536 bonds, 52 residues, 2 models selected
> select clear
> color #4 byhetero
> select ::name="UNL"
260 atoms, 276 bonds, 4 residues, 1 model selected
> color sel #73fcd6ff
> color sel byhetero
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> color #3 #009193ff models
> show #!3 models
> color #3 #43a1a3ff models
> color #3 #5bdddfff models
> color #3 #5bdddf66 models
> color #3 #92d0df66 models
> show #!2 models
> show #!1 models
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX sessions/AM_BTD_nano
> session.cxs"
> select
> ::name="AM2"::name="CA"::name="POV"::name="PTY"::name="UNL"::name="Y01"::name="YZY"::name="ZN"
1520 atoms, 1536 bonds, 52 residues, 2 models selected
> show sel target ab
> select add #4
23424 atoms, 23968 bonds, 32 pseudobonds, 2740 residues, 4 models selected
> select subtract #4
632 atoms, 640 bonds, 24 residues, 1 model selected
> select add #1
22384 atoms, 22912 bonds, 12 pseudobonds, 2696 residues, 2 models selected
> select subtract #1
Nothing selected
> hide #!3 models
> show #!3 models
> hide #!4 models
> show #!4 models
> hide #!3 models
> hide #!4 models
> volume #2 level 0.9812
> show #!3 models
> show #!4 models
> hide #!2 models
> hide #!1 models
> show #!2 models
> show #!1 models
> ui tool show "Side View"
> hide #!3 models
> show #!3 models
> volume #3 level 0.6068
> volume #3 level 1.545
> volume #2 level 1.399
> lighting soft
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX sessions/AM_BTD_nano
> session.cxs"
——— End of log from Wed Aug 27 11:40:08 2025 ———
opened ChimeraX session
> hide #!3 models
> hide #!4 models
> hide #!2 models
> show #!2 models
> hide #!1 models
> hide #!2 models
> show #!3 models
> show #!4 models
> hide #!4 models
> show #!4 models
> show #!2 models
> hide #!3 models
> hide #!2 models
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #51c3aaff
> select #4/D
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) byhetero
> select #4/B
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #1c7f7fff
> select #4/C
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> color #4 #1c7f7fcc
> color #4 #1c7f7fff
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #51c3aaff
> select #4/D
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color (#!4 & sel) #52c3aaff
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> color #4 byhetero
> select ::name="UNL"
260 atoms, 276 bonds, 4 residues, 1 model selected
> color sel #7a81ffff
> color sel byhetero
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> show #!3 models
> show #!2 models
> show #!1 models
> hide #!2 models
> hide #!4 models
> show #!4 models
> hide #!3 models
> show atoms
> lighting simple
> show #!3 models
> show #!2 models
> hide #!3 models
> hide #!2 models
> lighting soft
> show #!2 models
> show #!3 models
> color #3 #96e4d966 models
> color #3 #009193ff models
> color #3 #00919341 models
> color #3 #0091934a models
> color #3 #0091934e models
> color #3 #00919365 models
> color #3 #0091935a models
> color #3 #00919359 models
> lighting simple
[Repeated 1 time(s)]
> lighting soft
> volume #3 level 1.851
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_521.png" width
> 2019 height 1441 supersample 3
> lighting simple
> lighting soft
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_520.png" width
> 2019 height 1441 supersample 3
> hide #!4 models
> show #!4 models
> lighting simple
> lighting soft
> save "/Users/bs18klrh/OneDrive - University of
> Leeds/Research_Postgrad/Papers/AM237:BTD/Figures/N_AM_overBTD_519.png" width
> 2019 height 1441 supersample 3
> open "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
> N/NanoAM237_addingligands_AM_2.pdb"
Summary of feedback from opening
/Users/bs18klrh/Library/CloudStorage/OneDrive-
UniversityofLeeds/Research_Postgrad/EM/Model_Building/For AB paper/AM237
N/NanoAM237_addingligands_AM_2.pdb
---
warnings | Cannot find LINK/SSBOND residue POV (498 )
Cannot find LINK/SSBOND residue POV (313 )
Cannot find LINK/SSBOND residue POV (498 )
Cannot find LINK/SSBOND residue HIS (170 )
Cannot find LINK/SSBOND atom ZN in residue AM2 /C:749
14 messages similar to the above omitted
Chain information for NanoAM237_addingligands_AM_2.pdb #5
---
Chain | Description
A B C D | No description available
> hide #!1 models
> show #!4-5 atoms
> hide #!4 models
> hide #!3 models
> close #1
> color #5 #000a5aff
> color #5 #a5a5ffff
> color #5 #5e97faff
> color #5 #ccb4f8ff
> select #4/A
5698 atoms, 5832 bonds, 8 pseudobonds, 679 residues, 3 models selected
> color #5 #d783ffff
> undo
> show #!4 models
> hide #!5 models
> hide #!2 models
> show #!5 models
> hide #!4 models
> select add #4
22792 atoms, 23328 bonds, 32 pseudobonds, 2716 residues, 3 models selected
> select subtract #4
Nothing selected
> select #5/A
5596 atoms, 5729 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!5 & sel) #7a81ffff
> color (#!5 & sel) #d783ffff
> select #5/B
5596 atoms, 5729 bonds, 3 pseudobonds, 674 residues, 2 models selected
> color (#!5 & sel) #ff85ffff
> color (#!5 & sel) #d783ffff
> select ::name="AM2"
148 atoms, 160 bonds, 4 residues, 1 model selected
> color sel #ff2f92ff
> select add #5
22384 atoms, 22916 bonds, 12 pseudobonds, 2696 residues, 2 models selected
> select subtract #5
Nothing selected
> color #5 byhetero
> show #!2 models
> show #!3 models
> show #!4 models
> save "/Users/bs18klrh/Library/CloudStorage/OneDrive-
> UniversityofLeeds/Research_Postgrad/Papers/AM237:BTD/ChimeraX
> sessions/AM_BTD_nano session.cxs"
——— End of log from Mon Sep 22 14:29:23 2025 ———
opened ChimeraX session
OpenGL version: 4.1 Metal - 89.4
OpenGL renderer: Apple M3
OpenGL vendor: Apple
Python: 3.11.4
Locale: en_US.UTF-8
Qt version: PyQt6 6.6.1, Qt 6.6.1
Qt runtime version: 6.6.3
Qt platform: cocoa
Hardware:
Hardware Overview:
Model Name: Mac
Model Identifier: Mac15,3
Model Number: Z1C8000FDB/A
Chip: Unknown
Total Number of Cores: 8 (4 performance and 4 efficiency)
Memory: 16 GB
System Firmware Version: 13822.1.2
OS Loader Version: 11881.140.96
Software:
System Software Overview:
System Version: macOS 15.7 (24G222)
Kernel Version: Darwin 24.6.0
Time since boot: 14 hours, 10 minutes
Graphics/Displays:
Apple M3:
Chipset Model: Apple M3
Type: GPU
Bus: Built-In
Total Number of Cores: 10
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: Yes
Connection Type: Internal
PLX2283H-DP:
Resolution: 1920 x 1080 (1080p FHD - Full High Definition)
UI Looks like: 1920 x 1080 @ 60.00Hz
Mirror: Off
Online: Yes
Installed Packages:
alabaster: 0.7.16
appdirs: 1.4.4
appnope: 0.1.4
asttokens: 2.4.1
Babel: 2.15.0
beautifulsoup4: 4.12.3
blockdiag: 3.0.0
blosc2: 2.0.0
build: 1.2.1
certifi: 2023.11.17
cftime: 1.6.4
charset-normalizer: 3.3.2
ChimeraX-AddCharge: 1.5.17
ChimeraX-AddH: 2.2.6
ChimeraX-AlignmentAlgorithms: 2.0.2
ChimeraX-AlignmentHdrs: 3.5
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.12.7
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.1.1
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.57.1
ChimeraX-AtomicLibrary: 14.0.6
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.4
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.4.6
ChimeraX-BondRot: 2.0.4
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.12.1
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.7
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: 2.2.4
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: 1.8
ChimeraX-CoreFormats: 1.2
ChimeraX-coulombic: 1.4.3
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.2.4
ChimeraX-DiffPlot: 1.0
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: 1.1.1
ChimeraX-Hbonds: 2.4
ChimeraX-Help: 1.2.2
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-IUPAC: 1.0
ChimeraX-Label: 1.1.10
ChimeraX-ListInfo: 1.2.2
ChimeraX-Log: 1.1.6
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.9.1
ChimeraX-Map: 1.2
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: 2.1.3
ChimeraX-MCopy: 1.0
ChimeraX-MDcrds: 2.7.1
ChimeraX-MedicalToolbar: 1.0.3
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.14.1
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.17
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-Neuron: 1.0
ChimeraX-Nifti: 1.2
ChimeraX-NMRSTAR: 1.0.2
ChimeraX-NRRD: 1.2
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.13.5
ChimeraX-PDB: 2.7.5
ChimeraX-PDBBio: 1.0.1
ChimeraX-PDBLibrary: 1.0.4
ChimeraX-PDBMatrices: 1.0
ChimeraX-PhenixUI: 1.3.7
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1.1
ChimeraX-PubChem: 2.2
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.2
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.4.1
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.2
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: 3.0.15
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.11.2
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.3
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1.2
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StarMap: 1.2.15
ChimeraX-StdCommands: 1.16.5
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: 1.1.2
ChimeraX-ToolshedUtils: 1.2.4
ChimeraX-Topography: 1.0
ChimeraX-ToQuest: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.39.1
ChimeraX-uniprot: 2.3
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.4.3
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: 1.2.1
cxservices: 1.2.2
cycler: 0.12.1
Cython: 3.0.10
debugpy: 1.8.1
decorator: 5.1.1
docutils: 0.20.1
executing: 2.0.1
filelock: 3.13.4
fonttools: 4.53.0
funcparserlib: 2.0.0a0
glfw: 2.7.0
grako: 3.16.5
h5py: 3.11.0
html2text: 2024.2.26
idna: 3.7
ihm: 1.0
imagecodecs: 2024.1.1
imagesize: 1.4.1
ipykernel: 6.29.2
ipython: 8.21.0
ipywidgets: 8.1.3
jedi: 0.19.1
jinja2: 3.1.4
jupyter-client: 8.6.0
jupyter-core: 5.7.2
jupyterlab-widgets: 3.0.11
kiwisolver: 1.4.5
line-profiler: 4.1.2
lxml: 5.2.1
lz4: 4.3.3
MarkupSafe: 2.1.5
matplotlib: 3.8.4
matplotlib-inline: 0.1.7
msgpack: 1.0.8
nest-asyncio: 1.6.0
netCDF4: 1.6.5
networkx: 3.3
nibabel: 5.2.0
nptyping: 2.5.0
numexpr: 2.10.0
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: 10.3.0
pip: 24.0
pkginfo: 1.10.0
platformdirs: 4.2.2
prompt-toolkit: 3.0.47
psutil: 5.9.8
ptyprocess: 0.7.0
pure-eval: 0.2.2
py-cpuinfo: 9.0.0
pycollada: 0.8
pydicom: 2.4.4
pygments: 2.17.2
pynmrstar: 3.3.4
pynrrd: 1.0.0
PyOpenGL: 3.1.7
PyOpenGL-accelerate: 3.1.7
pyopenxr: 1.0.3401
pyparsing: 3.1.2
pyproject-hooks: 1.1.0
PyQt6-commercial: 6.6.1
PyQt6-Qt6: 6.6.3
PyQt6-sip: 13.6.0
PyQt6-WebEngine-commercial: 6.6.0
PyQt6-WebEngine-Qt6: 6.6.3
pyqtgraph: 0.13.7
python-dateutil: 2.9.0.post0
pytz: 2024.1
pyzmq: 26.0.3
qtconsole: 5.5.1
QtPy: 2.4.1
RandomWords: 0.4.0
requests: 2.31.0
scipy: 1.13.0
Send2Trash: 1.8.3
SEQCROW: 1.8.14
setuptools: 69.5.1
setuptools-scm: 8.0.4
sfftk-rw: 0.8.1
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.5
sphinx: 7.2.6
sphinx-autodoc-typehints: 2.0.1
sphinxcontrib-applehelp: 1.0.8
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.6
sphinxcontrib-htmlhelp: 2.0.5
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.7
sphinxcontrib-serializinghtml: 1.1.10
stack-data: 0.6.3
superqt: 0.6.3
tables: 3.8.0
tcia-utils: 1.5.1
tifffile: 2024.1.30
tinyarray: 1.2.4
tornado: 6.4.1
traitlets: 5.14.2
typing-extensions: 4.12.2
tzdata: 2024.1
urllib3: 2.2.1
wcwidth: 0.2.13
webcolors: 1.13
wheel: 0.43.0
wheel-filename: 1.4.1
widgetsnbextension: 4.0.11
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