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Opened 19 months ago
Closed 19 months ago
#14950 closed defect (duplicate)
Histogram widget: operands could not be broadcast together with shapes
| Reported by: | Owned by: | Eric Pettersen | |
|---|---|---|---|
| Priority: | normal | Milestone: | |
| Component: | UI | Version: | |
| Keywords: | Cc: | ||
| Blocked By: | Blocking: | ||
| Notify when closed: | Platform: | all | |
| Project: | ChimeraX |
Description
The following bug report has been submitted:
Platform: Linux-5.15.0-94-generic-x86_64-with-glibc2.31
ChimeraX Version: 1.6.dev202302160243 (2023-02-16 02:43:07 UTC)
Description
(Describe the actions that caused this problem to occur here)
Log:
UCSF ChimeraX version: 1.6.dev202302160243 (2023-02-16)
© 2016-2023 Regents of the University of California. All rights reserved.
> open
> /home/cryosparc/Documents/Nic_p2x1_chimera_ThirdSessions/POREMOLEPLOT_APO.cxs
Log from Wed Apr 10 11:02:15 2024UCSF ChimeraX version: 1.6.dev202302160243
(2023-02-16)
© 2016-2023 Regents of the University of California. All rights reserved.
> open
> /home/cryosparc/Documents/Nic_p2x1_chimera_ThirdSessions/overall_fourstructures.cxs
Log from Wed Apr 10 10:25:35 2024UCSF ChimeraX version: 1.6.dev202302160243
(2023-02-16)
© 2016-2023 Regents of the University of California. All rights reserved.
> open
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x1_vs_p2x3_atpvsapo_2.cxs
Log from Mon Apr 8 15:13:24 2024UCSF ChimeraX version: 1.6.dev202302160243
(2023-02-16)
© 2016-2023 Regents of the University of California. All rights reserved.
> open
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x1_vs_p2x3_atpvsapo.cxs
Log from Thu Apr 4 16:42:23 2024UCSF ChimeraX version: 1.6.dev202302160243
(2023-02-16)
© 2016-2023 Regents of the University of California. All rights reserved.
How to cite UCSF ChimeraX
> open
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb
Chain information for hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb #1
---
Chain | Description
A B C | No description available
> open
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/hP2X1_APO_PDBcheck_J224Bfac_AOfinal-04022024.pdb
Chain information for hP2X1_APO_PDBcheck_J224Bfac_AOfinal-04022024.pdb #2
---
Chain | Description
A B C | No description available
> set bgColor white
> open
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x3_atp_desensitized.pdb
p2x3_atp_desensitized.pdb title:
Crystal structure of the atp-gated human P2X3 ion channel In the atp- bound,
closed (desensitized) state [more info...]
Chain information for p2x3_atp_desensitized.pdb #3
---
Chain | Description | UniProt
A B | P2X purinoceptor 3 | P2RX3_HUMAN 6-364
Non-standard residues in p2x3_atp_desensitized.pdb #3
---
ACT — acetate ion
ATP — adenosine-5'-triphosphate
EDO — 1,2-ethanediol (ethylene glycol)
GLC — α-D-glucopyranose
NA — sodium ion
NAG — 2-acetamido-2-deoxy-β-D-glucopyranose
TRS — 2-amino-2-hydroxymethyl-propane-1,3-diol (tris buffer)
> open
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x3_atp_desensitized.pdb
p2x3_atp_desensitized.pdb title:
Crystal structure of the atp-gated human P2X3 ion channel In the atp- bound,
closed (desensitized) state [more info...]
Chain information for p2x3_atp_desensitized.pdb #4
---
Chain | Description | UniProt
A B | P2X purinoceptor 3 | P2RX3_HUMAN 6-364
Non-standard residues in p2x3_atp_desensitized.pdb #4
---
ACT — acetate ion
ATP — adenosine-5'-triphosphate
EDO — 1,2-ethanediol (ethylene glycol)
GLC — α-D-glucopyranose
NA — sodium ion
NAG — 2-acetamido-2-deoxy-β-D-glucopyranose
TRS — 2-amino-2-hydroxymethyl-propane-1,3-diol (tris buffer)
> close #4
> close #3
> open /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x3_apo_.pdb1
p2x3_apo_.pdb1 title:
Crystal structure of the atp-gated human P2X3 ion channel In the closed, apo
state [more info...]
Chain information for p2x3_apo_.pdb1
---
Chain | Description
3.1/A | No description available
3.2/A 3.3/A | No description available
> select add #3
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> ui mousemode right "translate selected models"
> view matrix models #3,1,0,0,224.22,0,1,0,305.46,0,0,1,216.75
> ui mousemode right "rotate selected models"
> view matrix models
> #3,-0.3939,-0.79393,0.46315,255.97,-0.77492,0.015865,-0.63187,270.61,0.49431,-0.6078,-0.62148,119.46
> ui mousemode right "rotate selected models"
> view matrix models
> #3,0.076912,-0.95457,0.28788,244.68,-0.99182,-0.10275,-0.07573,305.58,0.10187,-0.2797,-0.95467,98.86
> ui mousemode right select
> open
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x3_atpbound_desensitized.pdb1
Summary of feedback from opening
/home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x3_atpbound_desensitized.pdb1
---
warnings | Start residue of secondary structure not found: HELIX 14 AB5 ASN B
27 GLY B 40 1 14
Start residue of secondary structure not found: HELIX 15 AB6 ASP B 76 TYR B 80
1 5
Start residue of secondary structure not found: HELIX 16 AB7 GLU B 111 ARG B
115 5 5
Start residue of secondary structure not found: HELIX 17 AB8 MET B 165 ASN B
170 5 6
Start residue of secondary structure not found: HELIX 18 AB9 PRO B 182 ASN B
185 5 4
30 messages similar to the above omitted
Cannot find LINK/SSBOND residue CYS (107 )
Cannot find LINK/SSBOND residue CYS (116 )
Cannot find LINK/SSBOND residue CYS (122 )
Cannot find LINK/SSBOND residue CYS (203 )
Cannot find LINK/SSBOND residue CYS (247 )
6 messages similar to the above omitted
Start residue of secondary structure not found: HELIX 14 AB5 ASN B 27 GLY B 40
1 14
Start residue of secondary structure not found: HELIX 15 AB6 ASP B 76 TYR B 80
1 5
Start residue of secondary structure not found: HELIX 16 AB7 GLU B 111 ARG B
115 5 5
Start residue of secondary structure not found: HELIX 17 AB8 MET B 165 ASN B
170 5 6
Start residue of secondary structure not found: HELIX 18 AB9 PRO B 182 ASN B
185 5 4
65 messages similar to the above omitted
p2x3_atpbound_desensitized.pdb1 title:
Crystal structure of the atp-gated human P2X3 ion channel In the atp- bound,
closed (desensitized) state [more info...]
Chain information for p2x3_atpbound_desensitized.pdb1
---
Chain | Description
4.1/A | No description available
4.2/A 4.3/A | No description available
> select add #4
16239 atoms, 16336 bonds, 7 pseudobonds, 2253 residues, 12 models selected
> select subtract #3
8457 atoms, 8471 bonds, 4 pseudobonds, 1188 residues, 5 models selected
Drag select of 25 atoms, 155 residues, 2 pseudobonds, 24 bonds
> ui mousemode right "translate selected models"
> view matrix models
> #2,1,0,0,-10.451,0,1,0,-8.9398,0,0,1,12.736,#4.1,1,0,0,-10.451,0,1,0,-8.9398,0,0,1,12.736,#4.2,1,0,0,-10.451,0,1,0,-8.9398,0,0,1,12.736,#4.3,1,0,0,-10.451,0,1,0,-8.9398,0,0,1,12.736
> select add #2
8863 atoms, 8279 bonds, 6 pseudobonds, 1152 residues, 5 models selected
> select subtract #2
736 atoms, 23 bonds, 96 residues, 3 models selected
> view matrix models
> #4.1,1,0,0,253.26,0,1,0,143.2,0,0,1,3.2813,#4.2,1,0,0,253.26,0,1,0,143.2,0,0,1,3.2813,#4.3,1,0,0,253.26,0,1,0,143.2,0,0,1,3.2813
> ui mousemode right "rotate selected models"
> view matrix models
> #4.1,0.68422,-0.007837,-0.72924,374.75,-0.33235,0.88672,-0.32136,231.07,0.64915,0.46224,0.6041,-76.559,#4.2,0.68422,-0.007837,-0.72924,374.75,-0.33235,0.88672,-0.32136,231.07,0.64915,0.46224,0.6041,-76.559,#4.3,0.68422,-0.007837,-0.72924,374.75,-0.33235,0.88672,-0.32136,231.07,0.64915,0.46224,0.6041,-76.559
> ui mousemode right "translate selected models"
> view matrix models
> #4.1,0.68422,-0.007837,-0.72924,319.51,-0.33235,0.88672,-0.32136,283.15,0.64915,0.46224,0.6041,-42.911,#4.2,0.68422,-0.007837,-0.72924,319.51,-0.33235,0.88672,-0.32136,283.15,0.64915,0.46224,0.6041,-42.911,#4.3,0.68422,-0.007837,-0.72924,319.51,-0.33235,0.88672,-0.32136,283.15,0.64915,0.46224,0.6041,-42.911
> view matrix models
> #4.1,0.68422,-0.007837,-0.72924,326.79,-0.33235,0.88672,-0.32136,291.73,0.64915,0.46224,0.6041,-41.677,#4.2,0.68422,-0.007837,-0.72924,326.79,-0.33235,0.88672,-0.32136,291.73,0.64915,0.46224,0.6041,-41.677,#4.3,0.68422,-0.007837,-0.72924,326.79,-0.33235,0.88672,-0.32136,291.73,0.64915,0.46224,0.6041,-41.677
> select add #3
8518 atoms, 7888 bonds, 3 pseudobonds, 1161 residues, 10 models selected
> select add #4
16239 atoms, 16336 bonds, 7 pseudobonds, 2253 residues, 12 models selected
> select subtract #4
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> view matrix models
> #3,0.076912,-0.95457,0.28788,231.02,-0.99182,-0.10275,-0.07573,293.49,0.10187,-0.2797,-0.95467,99.413
> view matrix models
> #3,0.076912,-0.95457,0.28788,264.41,-0.99182,-0.10275,-0.07573,264.26,0.10187,-0.2797,-0.95467,110.09
> view matrix models
> #3,0.076912,-0.95457,0.28788,258.96,-0.99182,-0.10275,-0.07573,258.37,0.10187,-0.2797,-0.95467,111.32
> select subtract #3
Nothing selected
> select add #1
8208 atoms, 8300 bonds, 1155 residues, 1 model selected
> view matrix models #1,1,0,0,-11.502,0,1,0,-14.331,0,0,1,-4.8958
> select add #2
16335 atoms, 16556 bonds, 6 pseudobonds, 2211 residues, 3 models selected
> select subtract #1
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> view matrix models #2,1,0,0,-22.433,0,1,0,-10.625,0,0,1,45.895
> select subtract #2
Nothing selected
> select add #3
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> ui mousemode right "rotate selected models"
> view matrix models
> #3,0.06006,-0.95915,0.27644,258.3,-0.9943,-0.081923,-0.068224,258.73,0.088084,-0.27076,-0.95861,111.06
> view matrix models
> #3,0.07616,-0.98437,0.1588,251.24,-0.98229,-0.10141,-0.15755,253.37,0.17119,-0.14398,-0.97466,109.4
> select subtract #3
Nothing selected
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> view matrix models
> #2,0.97152,-0.23674,0.010066,10.029,0.23676,0.97157,-0.0004951,-37.264,-0.0096626,0.0028642,0.99995,46.775
> view matrix models
> #2,0.97099,-0.23764,-0.026498,14.375,0.23911,0.96414,0.11512,-49.794,-0.0018087,-0.11811,0.993,61.83
> view matrix models
> #2,0.96404,-0.25642,-0.06986,22.559,0.26454,0.95108,0.15958,-56.46,0.025522,-0.17233,0.98471,66.099
> view matrix models
> #2,0.95454,-0.29787,-0.011666,22.359,0.29788,0.95163,0.075252,-51.192,-0.011314,-0.075306,0.9971,57.185
> view matrix models
> #2,0.95485,-0.28976,-0.065545,27.43,0.29219,0.95586,0.031022,-45.96,0.053663,-0.048773,0.99737,45.488
> view matrix models
> #2,0.95082,-0.28994,-0.10899,32.917,0.29481,0.95505,0.031179,-46.21,0.095047,-0.061775,0.99355,42.273
> view matrix models
> #2,0.9917,0.037258,-0.12308,-12.056,-0.033309,0.99887,0.033994,-10.164,0.12421,-0.029613,0.99181,34.682
> view matrix models
> #2,0.55736,0.82639,-0.080188,-60.839,-0.82686,0.56122,0.036471,146.45,0.075142,0.045977,0.99611,30.943
> view matrix models
> #2,0.97903,0.20373,-0.00092467,-45.328,-0.20363,0.97865,0.02799,14.866,0.0066074,-0.027215,0.99961,48.565
> view matrix models
> #2,0.99966,-0.0070285,-0.025144,-18.573,0.0075343,0.99977,0.020078,-13.915,0.024997,-0.020261,0.99948,45.349
> select add #1
16335 atoms, 16556 bonds, 6 pseudobonds, 2211 residues, 3 models selected
> select subtract #2
8208 atoms, 8300 bonds, 1155 residues, 1 model selected
> view matrix models
> #1,0.91064,-0.41292,-0.015188,87.756,0.41312,0.91057,0.013644,-80.291,0.008196,-0.018699,0.99979,-2.8767
> ui mousemode right "translate selected models"
> view matrix models
> #1,0.91064,-0.41292,-0.015188,79.627,0.41312,0.91057,0.013644,-69.419,0.008196,-0.018699,0.99979,-2.8872
> select subtract #1
Nothing selected
> select add #3
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> view matrix models
> #3,0.07616,-0.98437,0.1588,249.35,-0.98229,-0.10141,-0.15755,254.93,0.17119,-0.14398,-0.97466,109.3
> select subtract #3
Nothing selected
> select add #4
8457 atoms, 8471 bonds, 4 pseudobonds, 1188 residues, 5 models selected
> view matrix models #4,1,0,0,-8.0839,0,1,0,21.793,0,0,1,-4.9472
> view matrix models #4,1,0,0,-10.706,0,1,0,26.751,0,0,1,-6.2827
> ui mousemode right "rotate selected models"
> view matrix models
> #4,0.9542,-0.29805,0.025715,95.491,0.29496,0.95169,0.085287,-64.513,-0.049892,-0.073796,0.99602,33.842
> select subtract #4
Nothing selected
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.99966,-0.0070285,-0.025144,-18.69,0.0075343,0.99977,0.020078,-14.34,0.024997,-0.020261,0.99948,50.361
> ui mousemode right select
> select clear
[Repeated 1 time(s)]
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x1_vs_p2x3_atpvsapo.cxs
> ui mousemode right rotate
> select add #3
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> select subtract #3
Nothing selected
> select add #1
8208 atoms, 8300 bonds, 1155 residues, 1 model selected
> select add #2
16335 atoms, 16556 bonds, 6 pseudobonds, 2211 residues, 3 models selected
> hide sel atoms
> show sel atoms
> hide sel atoms
> undo
[Repeated 2 time(s)]
> ui mousemode right select
> select clear
> select #4
8457 atoms, 8471 bonds, 4 pseudobonds, 1188 residues, 5 models selected
> select clear
> select #1:atp
93 atoms, 99 bonds, 3 residues, 1 model selected
> style sel sphere
Changed 93 atom styles
> select clear
> select add #1
8208 atoms, 8300 bonds, 1155 residues, 1 model selected
> select add #2
16335 atoms, 16556 bonds, 6 pseudobonds, 2211 residues, 3 models selected
> select #1:atp
93 atoms, 99 bonds, 3 residues, 1 model selected
> select clear
[Repeated 1 time(s)]
> select add #1
8208 atoms, 8300 bonds, 1155 residues, 1 model selected
> select add #2
16335 atoms, 16556 bonds, 6 pseudobonds, 2211 residues, 3 models selected
> hide sel atoms
> select #1:atp
93 atoms, 99 bonds, 3 residues, 1 model selected
> show sel surfaces
> show sel atoms
> hide sel surfaces
> select clear
> select #1:a
Nothing selected
> select #1/a
2689 atoms, 2768 bonds, 338 residues, 1 model selected
> color (#!1 & sel) forest green
> color (#!1 & sel) cornflower blue
> select #1/b
2689 atoms, 2768 bonds, 338 residues, 1 model selected
> color (#!1 & sel) light sea green
> select #1/c
2689 atoms, 2764 bonds, 338 residues, 1 model selected
> color (#!1 & sel) blue
> select #1:atp
93 atoms, 99 bonds, 3 residues, 1 model selected
> color (#!1 & sel) byhetero
> color (#!1 & sel) gray
> color (#!1 & sel) byhetero
> select clear
> select #1/c
2689 atoms, 2764 bonds, 338 residues, 1 model selected
> color (#!1 & sel) light sea green
> color (#!1 & sel) #87ceebff
> color (#!1 & sel) #00ffffff
> color (#!1 & sel) #87ceebff
> color (#!1 & sel) light gray
> select #1:atp
93 atoms, 99 bonds, 3 residues, 1 model selected
> color (#!1 & sel) dim gray
> color (#!1 & sel) byhetero
> select #1:c
Nothing selected
> select #1/c
2689 atoms, 2764 bonds, 338 residues, 1 model selected
> color (#!1 & sel) dim gray
> select #1:atp
93 atoms, 99 bonds, 3 residues, 1 model selected
> color (#!1 & sel) light gray
> color (#!1 & sel) byhetero
> select clear
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> select #2/a
2675 atoms, 2752 bonds, 2 pseudobonds, 318 residues, 2 models selected
> color (#!2 & sel) #8ae234ff
> select #2/b
2675 atoms, 2752 bonds, 2 pseudobonds, 318 residues, 2 models selected
> color (#!2 & sel) #73d216ff
> color (#!2 & sel) #4e9a06ff
> color (#!2 & sel) #7dbf40ff
> color (#!2 & sel) #59bf40ff
> color (#!2 & sel) #56bf40ff
> color (#!2 & sel) #51bf40ff
> color (#!2 & sel) #44bf40ff
> color (#!2 & sel) #2abf24ff
> color (#!2 & sel) #24a61fff
> color (#!2 & sel) #22a61eff
> color (#!2 & sel) #1aa616ff
> color (#!2 & sel) #199e15ff
> color (#!2 & sel) #0c9e07ff
> color (#!2 & sel) #0c9307ff
> color (#!2 & sel) #069301ff
> color (#!2 & sel) #068c01ff
> color (#!2 & sel) #078c02ff
> color (#!2 & sel) #067a02ff
> color (#!2 & sel) #097a05ff
> color (#!2 & sel) #075704ff
[Repeated 1 time(s)]
> color (#!2 & sel) #075304ff
> color (#!2 & sel) #035300ff
> color (#!2 & sel) #035d00ff
> color (#!2 & sel) #048200ff
> color (#!2 & sel) #059700ff
> color (#!2 & sel) #06ab00ff
> color (#!2 & sel) #06be00ff
> color (#!2 & sel) #07c800ff
> color (#!2 & sel) #07cc00ff
> color (#!2 & sel) #07ce00ff
> color (#!2 & sel) #07cd00ff
> color (#!2 & sel) #07c900ff
> color (#!2 & sel) #07c100ff
> color (#!2 & sel) #09c103ff
> color (#!2 & sel) #09b902ff
> color (#!2 & sel) #0db907ff
> color (#!2 & sel) #0db307ff
> color (#!2 & sel) #1cb317ff
> color (#!2 & sel) #1bae16ff
> color (#!2 & sel) #2aae25ff
> color (#!2 & sel) #2ab026ff
> color (#!2 & sel) #3eb03aff
> color (#!2 & sel) #3fb33bff
> color (#!2 & sel) #48b344ff
> color (#!2 & sel) #43a740ff
> color (#!2 & sel) #49a745ff
> color (#!2 & sel) #439940ff
> color (#!2 & sel) #4b9948ff
> color (#!2 & sel) #428640ff
> color (#!2 & sel) #4a8648ff
> color (#!2 & sel) #467f44ff
> color (#!2 & sel) #487f46ff
> color (#!2 & sel) #4d884bff
> color (#!2 & sel) #4e884cff
> color (#!2 & sel) #528e4fff
> color (#!2 & sel) #528f50ff
> color (#!2 & sel) #589956ff
> color (#!2 & sel) #579855ff
> color (#!2 & sel) #559352ff
> color (#!2 & sel) #549151ff
> color (#!2 & sel) #539050ff
> color (#!2 & sel) #528f50ff
> color (#!2 & sel) #538f50ff
> color (#!2 & sel) #528d4fff
> color (#!2 & sel) #558d53ff
> color (#!2 & sel) #548b52ff
> color (#!2 & sel) #558b53ff
> color (#!2 & sel) #548b52ff
> color (#!2 & sel) #578b55ff
> color (#!2 & sel) #568854ff
> color (#!2 & sel) #5a8858ff
> color (#!2 & sel) #649862ff
[Repeated 1 time(s)]
> color (#!2 & sel) #70ab6eff
> color (#!2 & sel) #73ab71ff
> color (#!2 & sel) #77b275ff
> color (#!2 & sel) #79b277ff
> color (#!2 & sel) #7ab378ff
> color (#!2 & sel) #79b277ff
> color (#!2 & sel) #78b176ff
> color (#!2 & sel) #78b076ff
> color (#!2 & sel) #77b075ff
> color (#!2 & sel) #76ae74ff
> color (#!2 & sel) #77af75ff
> color (#!2 & sel) #78af76ff
> color (#!2 & sel) #7fb97dff
> color (#!2 & sel) #81b97fff
> color (#!2 & sel) #85bf83ff
> color (#!2 & sel) #88bf86ff
> color (#!2 & sel) #8bc489ff
> color (#!2 & sel) #91c48fff
> color (#!2 & sel) #92c490ff
> color (#!2 & sel) #92c491ff
> color (#!2 & sel) #93c491ff
> color (#!2 & sel) #92c491ff
> color (#!2 & sel) #8fbe8dff
[Repeated 2 time(s)]
> select #2/c
2675 atoms, 2752 bonds, 2 pseudobonds, 318 residues, 2 models selected
> color (#!2 & sel) #73d216ff
> color (#!2 & sel) #8fbe8dff
> color (#!2 & sel) #40bf86ff
> color (#!2 & sel) #40bf81ff
> color (#!2 & sel) #40bf72ff
> color (#!2 & sel) #40bf62ff
> color (#!2 & sel) #40bf53ff
> color (#!2 & sel) #40bf46ff
> color (#!2 & sel) #40bf41ff
> color (#!2 & sel) #4cbf40ff
> color (#!2 & sel) #4ebf40ff
> color (#!2 & sel) #60bf40ff
> color (#!2 & sel) #6bbf40ff
> color (#!2 & sel) #6dbf40ff
> color (#!2 & sel) #8cbf40ff
> color (#!2 & sel) #8fbf40ff
> color (#!2 & sel) #9cbf40ff
> color (#!2 & sel) #a6bf40ff
> color (#!2 & sel) #abbf40ff
> color (#!2 & sel) #a9bf40ff
> color (#!2 & sel) #82bf40ff
> color (#!2 & sel) #7abf40ff
> color (#!2 & sel) #56bf40ff
> color (#!2 & sel) #54bf40ff
> color (#!2 & sel) #4cbf40ff
> color (#!2 & sel) #44bf40ff
> color (#!2 & sel) #41bf40ff
> color (#!2 & sel) #40bf46ff
> color (#!2 & sel) #40bf58ff
> color (#!2 & sel) #52bf67ff
> color (#!2 & sel) #4fb863ff
> color (#!2 & sel) #62b872ff
> color (#!2 & sel) #62b973ff
> color (#!2 & sel) #74b981ff
> color (#!2 & sel) #70b37dff
> color (#!2 & sel) #7bb386ff
> color (#!2 & sel) #64916cff
> color (#!2 & sel) #6b9172ff
> color (#!2 & sel) #688e6fff
> color (#!2 & sel) #788e7cff
> color (#!2 & sel) #97b39cff
> color (#!2 & sel) #9bb39fff
> color (#!2 & sel) #a4bea9ff
> color (#!2 & sel) #a6bfabff
> color (#!2 & sel) #9fbfa5ff
> color (#!2 & sel) #b0d4b7ff
> color (#!2 & sel) #b1d4b8ff
> color (#!2 & sel) #b0d3b7ff
> color (#!2 & sel) #bcd3c0ff
> color (#!2 & sel) #95a799ff
> color (#!2 & sel) #97a79aff
> color (#!2 & sel) #89988cff
> color (#!2 & sel) #869589ff
> color (#!2 & sel) #7a957fff
> color (#!2 & sel) #8ba890ff
> color (#!2 & sel) #5ea86cff
> color (#!2 & sel) #69bc78ff
> color (#!2 & sel) #50bc65ff
> color (#!2 & sel) #4eb762ff
> color (#!2 & sel) #44b759ff
> color (#!2 & sel) #3ca350ff
> color (#!2 & sel) #40a352ff
> color (#!2 & sel) #235a2eff
> color (#!2 & sel) #225a2cff
> color (#!2 & sel) #1a4522ff
> color (#!2 & sel) #194521ff
> color (#!2 & sel) #194321ff
> color (#!2 & sel) #184320ff
> color (#!2 & sel) #17431fff
> color (#!2 & sel) #174520ff
> color (#!2 & sel) #12451bff
> color (#!2 & sel) #175b24ff
> color (#!2 & sel) #125b1fff
> color (#!2 & sel) #167027ff
> color (#!2 & sel) #117023ff
> color (#!2 & sel) #148429ff
> color (#!2 & sel) #138428ff
> color (#!2 & sel) #16992fff
> color (#!2 & sel) #179930ff
> color (#!2 & sel) #1cb839ff
> color (#!2 & sel) #22b83eff
> color (#!2 & sel) #26cf46ff
> color (#!2 & sel) #43cf5eff
> color (#!2 & sel) #49df65ff
> color (#!2 & sel) #6edf83ff
> color (#!2 & sel) #71e687ff
> color (#!2 & sel) #91e6a1ff
> color (#!2 & sel) #95eba5ff
> color (#!2 & sel) #a3ebb1ff
> color (#!2 & sel) #abf5b9ff
> color (#!2 & sel) #acf5baff
> color (#!2 & sel) #adf7bbff
> color (#!2 & sel) #aff7bdff
> color (#!2 & sel) #bff7c9ff
> color (#!2 & sel) #b2e6bcff
> color (#!2 & sel) #c6e6ccff
> color (#!2 & sel) #bad8bfff
> color (#!2 & sel) #bdd8c2ff
> color (#!2 & sel) #bbd6c0ff
> color (#!2 & sel) #abd6b3ff
> color (#!2 & sel) #98be9fff
> color (#!2 & sel) #83be8eff
> color (#!2 & sel) #71a37bff
> color (#!2 & sel) #65a371ff
> color (#!2 & sel) #629e6dff
> color (#!2 & sel) #569e64ff
> color (#!2 & sel) #559c62ff
> color (#!2 & sel) #519c5fff
> color (#!2 & sel) #509b5eff
> color (#!2 & sel) #4d9b5cff
> color (#!2 & sel) #4b9b5aff
> color (#!2 & sel) #4c9c5bff
> color (#!2 & sel) #459c55ff
> color (#!2 & sel) #469f57ff
> color (#!2 & sel) #3b9f4eff
> color (#!2 & sel) #3b9d4dff
> color (#!2 & sel) #3a9d4dff
> color (#!2 & sel) #358f46ff
> color (#!2 & sel) #3c8f4cff
> color (#!2 & sel) #32763fff
> color (#!2 & sel) #377643ff
> color (#!2 & sel) #31693cff
> color (#!2 & sel) #31693bff
> color (#!2 & sel) #30683bff
[Repeated 1 time(s)]
> color (#!2 & sel) #2d6838ff
> color (#!2 & sel) #2b6836ff
> color (#!2 & sel) #286834ff
> color (#!2 & sel) #276834ff
> color (#!2 & sel) #286934ff
> color (#!2 & sel) #276933ff
> color (#!2 & sel) #2a7037ff
[Repeated 1 time(s)]
> color (#!2 & sel) #2c783bff
> color (#!2 & sel) #2c783aff
> color (#!2 & sel) #2d7b3cff
> color (#!2 & sel) #2e7f3eff
> color (#!2 & sel) #2e7f3dff
> color (#!2 & sel) #2f813fff
> color (#!2 & sel) #2f803eff
> color (#!2 & sel) #2e803eff
> color (#!2 & sel) #2e7f3dff
> color (#!2 & sel) #2e7e3dff
> color (#!2 & sel) #2d7b3cff
> color (#!2 & sel) #2c7b3bff
> color (#!2 & sel) #2b793aff
> color (#!2 & sel) #2b783aff
> color (#!2 & sel) #2b7839ff
> color (#!2 & sel) #2a7838ff
> color (#!2 & sel) #2a7a3aff
> color (#!2 & sel) #2a7a39ff
> color (#!2 & sel) #297a38ff
> color (#!2 & sel) #267a36ff
> color (#!2 & sel) #277d37ff
> color (#!2 & sel) #247d35ff
> color (#!2 & sel) #258036ff
> color (#!2 & sel) #248035ff
> color (#!2 & sel) #278939ff
> color (#!2 & sel) #288c3bff
> color (#!2 & sel) #278c3aff
> color (#!2 & sel) #28903cff
> color (#!2 & sel) #29913cff
> color (#!2 & sel) #28913cff
[Repeated 2 time(s)]Drag select of 5 residues
> select clear
[Repeated 1 time(s)]
> select #2/a
2675 atoms, 2752 bonds, 2 pseudobonds, 318 residues, 2 models selected
> color (#!2 & sel) #8ae234ff
> color (#!2 & sel) #73bf40ff
> color (#!2 & sel) #70bf40ff
> color (#!2 & sel) #5bbf40ff
> color (#!2 & sel) #4cbf40ff
> color (#!2 & sel) #41bf40ff
> color (#!2 & sel) #40bf43ff
> color (#!2 & sel) #40bf46ff
> color (#!2 & sel) #40bf4eff
> color (#!2 & sel) #40bf53ff
> color (#!2 & sel) #40bf5dff
> color (#!2 & sel) #40bf60ff
> color (#!2 & sel) #40bf62ff
> color (#!2 & sel) #40bf65ff
> color (#!2 & sel) #40bf62ff
> color (#!2 & sel) #40bf5dff
> color (#!2 & sel) #40bf79ff
> color (#!2 & sel) #40bf7cff
> color (#!2 & sel) #40bf89ff
> color (#!2 & sel) #42bf8aff
> color (#!2 & sel) #51eba9ff
> color (#!2 & sel) #4deba7ff
> color (#!2 & sel) #4deda9ff
> color (#!2 & sel) #2ced9bff
> color (#!2 & sel) #30ffa7ff
> color (#!2 & sel) #27ffa3ff
> color (#!2 & sel) #26ffa3ff
> color (#!2 & sel) #31ffa7ff
> color (#!2 & sel) #2ff4a0ff
> color (#!2 & sel) #3bf4a5ff
> color (#!2 & sel) #37e39aff
> color (#!2 & sel) #42e39eff
> color (#!2 & sel) #40db99ff
> color (#!2 & sel) #4fdba0ff
> color (#!2 & sel) #4acf96ff
> color (#!2 & sel) #55cf9bff
> color (#!2 & sel) #50c291ff
> color (#!2 & sel) #5ec297ff
> color (#!2 & sel) #55af89ff
> color (#!2 & sel) #60af8eff
> color (#!2 & sel) #569c7eff
> color (#!2 & sel) #5d9c81ff
> color (#!2 & sel) #548c74ff
> color (#!2 & sel) #578c76ff
> color (#!2 & sel) #538570ff
> color (#!2 & sel) #578572ff
> color (#!2 & sel) #527f6cff
> color (#!2 & sel) #537f6cff
> color (#!2 & sel) #537e6bff
> color (#!2 & sel) #537f6cff
> color (#!2 & sel) #437f65ff
> color (#!2 & sel) #549f7fff
> color (#!2 & sel) #439f78ff
> color (#!2 & sel) #50be8fff
> color (#!2 & sel) #4bbe8dff
> color (#!2 & sel) #4dc391ff
> color (#!2 & sel) #54c34dff
> color (#!2 & sel) #56c34dff
> color (#!2 & sel) #86c34dff
> color (#!2 & sel) #8ac34dff
> color (#!2 & sel) #96c34dff
> color (#!2 & sel) #a9c34dff
> color (#!2 & sel) #bac34dff
> color (#!2 & sel) #c3bd4dff
> color (#!2 & sel) #c3ac4dff
> color (#!2 & sel) #c3a14dff
> color (#!2 & sel) #c3a34dff
> color (#!2 & sel) #c3a54dff
> color (#!2 & sel) #c3a84dff
> color (#!2 & sel) #c3aa4dff
> color (#!2 & sel) #c3ac4dff
> color (#!2 & sel) #c3af4dff
> color (#!2 & sel) #c3b44dff
> color (#!2 & sel) #c3b84dff
> color (#!2 & sel) #c3bd4dff
> color (#!2 & sel) #c3bf4dff
> color (#!2 & sel) #c3c24dff
> color (#!2 & sel) #c1c34dff
> color (#!2 & sel) #b8c34dff
> color (#!2 & sel) #aec34dff
> color (#!2 & sel) #a9c34dff
> color (#!2 & sel) #9bc34dff
> color (#!2 & sel) #94c34dff
> color (#!2 & sel) #98c359ff
> color (#!2 & sel) #a2cf5fff
> color (#!2 & sel) #a1cf5bff
> color (#!2 & sel) #abdc61ff
> color (#!2 & sel) #9bdc39ff
> color (#!2 & sel) #b4ff42ff
> color (#!2 & sel) #acff30ff
> color (#!2 & sel) #acff2fff
> color (#!2 & sel) #b5ff46ff
> color (#!2 & sel) #adf443ff
> color (#!2 & sel) #c2f476ff
> color (#!2 & sel) #adda69ff
> color (#!2 & sel) #b5da7dff
> color (#!2 & sel) #abce76ff
> color (#!2 & sel) #b0ce83ff
> color (#!2 & sel) #a6c27bff
> color (#!2 & sel) #a8c280ff
> color (#!2 & sel) #96ad72ff
> color (#!2 & sel) #96ad74ff
> color (#!2 & sel) #859a67ff
> color (#!2 & sel) #869a67ff
> color (#!2 & sel) #7e9161ff
> color (#!2 & sel) #7e9160ff
> color (#!2 & sel) #7a9156ff
> color (#!2 & sel) #7a9257ff
> color (#!2 & sel) #77924eff
> color (#!2 & sel) #78934fff
> color (#!2 & sel) #78934eff
> color (#!2 & sel) #77934eff
> color (#!2 & sel) #77924dff
> color (#!2 & sel) #76914dff
> color (#!2 & sel) #77914eff
> color (#!2 & sel) #75904dff
> color (#!2 & sel) #738d4cff
[Repeated 1 time(s)]
> color (#!2 & sel) #6f8849ff
[Repeated 1 time(s)]
> color (#!2 & sel) #617740ff
> color (#!2 & sel) #60773eff
> color (#!2 & sel) #576c38ff
[Repeated 1 time(s)]
> color (#!2 & sel) #556936ff
> color (#!2 & sel) #546836ff
> color (#!2 & sel) #556936ff
> color (#!2 & sel) #546936ff
> color (#!2 & sel) #596f39ff
> color (#!2 & sel) #596f38ff
> color (#!2 & sel) #627a3eff
> color (#!2 & sel) #657e40ff
> color (#!2 & sel) #667f40ff
[Repeated 2 time(s)]
> color (#!2 & sel) #647d3fff
> color (#!2 & sel) #657d40ff
> color (#!2 & sel) #647c3fff
> color (#!2 & sel) #657c41ff
> color (#!2 & sel) #647b41ff
> color (#!2 & sel) #687b4bff
> color (#!2 & sel) #6c804dff
> color (#!2 & sel) #6e8053ff
[Repeated 1 time(s)]
> color (#!2 & sel) #718059ff
> color (#!2 & sel) #71815aff
> color (#!2 & sel) #73815dff
> color (#!2 & sel) #74825eff
[Repeated 1 time(s)]
> color (#!2 & sel) #74835fff
> color (#!2 & sel) #74835eff
> color (#!2 & sel) #708353ff
> color (#!2 & sel) #718454ff
> color (#!2 & sel) #68843eff
> color (#!2 & sel) #69853fff
> color (#!2 & sel) #658534ff
> color (#!2 & sel) #658634ff
> color (#!2 & sel) #62862bff
> color (#!2 & sel) #63882bff
> color (#!2 & sel) #618827ff
> color (#!2 & sel) #628927ff
> color (#!2 & sel) #608923ff
> color (#!2 & sel) #5e891dff
> color (#!2 & sel) #5c8918ff
> color (#!2 & sel) #5c8917ff
> color (#!2 & sel) #5b8917ff
> color (#!2 & sel) #598911ff
> color (#!2 & sel) #57890cff
> color (#!2 & sel) #57890bff
> color (#!2 & sel) #57890cff
> color (#!2 & sel) #5a8912ff
> color (#!2 & sel) #5c8c13ff
> color (#!2 & sel) #6ca516ff
> color (#!2 & sel) #6ca515ff
> color (#!2 & sel) #77b718ff
> color (#!2 & sel) #77b717ff
> color (#!2 & sel) #82c919ff
> color (#!2 & sel) #84ca19ff
> color (#!2 & sel) #82c919ff
> color (#!2 & sel) #8ac92cff
> color (#!2 & sel) #82bd2aff
> color (#!2 & sel) #95bd59ff
> color (#!2 & sel) #93ba57ff
> color (#!2 & sel) #9dba72ff
> color (#!2 & sel) #a0bd74ff
> color (#!2 & sel) #a5bd82ff
> color (#!2 & sel) #b3cc8dff
> color (#!2 & sel) #b3cc8eff
> color (#!2 & sel) #c0da98ff
> color (#!2 & sel) #cbe7a1ff
> color (#!2 & sel) #cce8a2ff
> color (#!2 & sel) #cbe89fff
> color (#!2 & sel) #cae69eff
> color (#!2 & sel) #b8e673ff
> color (#!2 & sel) #b0dc6eff
> color (#!2 & sel) #aadc5dff
> color (#!2 & sel) #a8da5cff
> color (#!2 & sel) #a4da53ff
> color (#!2 & sel) #a2da4cff
> color (#!2 & sel) #a0da49ff
> color (#!2 & sel) #a0da48ff
> color (#!2 & sel) #a7e44bff
> color (#!2 & sel) #a9e74cff
[Repeated 1 time(s)]
> color (#!2 & sel) #aae84cff
> color (#!2 & sel) #a9e84bff
> color (#!2 & sel) #aceb4cff
> color (#!2 & sel) #b0eb56ff
> color (#!2 & sel) #a8e052ff
> color (#!2 & sel) #aae058ff
> color (#!2 & sel) #9fd252ff
> color (#!2 & sel) #9fd253ff
> color (#!2 & sel) #92c14cff
> color (#!2 & sel) #92c14bff
> color (#!2 & sel) #8ab747ff
> color (#!2 & sel) #8ab746ff
> color (#!2 & sel) #84af43ff
> color (#!2 & sel) #84af42ff
> color (#!2 & sel) #7da63eff
> color (#!2 & sel) #7ca63eff
> color (#!2 & sel) #769d3bff
> color (#!2 & sel) #739a39ff
> color (#!2 & sel) #729a37ff
> color (#!2 & sel) #709736ff
> color (#!2 & sel) #719736ff
> color (#!2 & sel) #719738ff
> color (#!2 & sel) #729739ff
> color (#!2 & sel) #719639ff
> color (#!2 & sel) #71963aff
> color (#!2 & sel) #70953aff
> color (#!2 & sel) #71953aff
> color (#!2 & sel) #73953fff
> color (#!2 & sel) #70913eff
> color (#!2 & sel) #739145ff
> color (#!2 & sel) #6e8b42ff
> color (#!2 & sel) #708b46ff
> color (#!2 & sel) #6c8643ff
> color (#!2 & sel) #6c8644ff
> color (#!2 & sel) #698343ff
> color (#!2 & sel) #698242ff
> color (#!2 & sel) #66823cff
> color (#!2 & sel) #6a863eff
> color (#!2 & sel) #69863eff
> color (#!2 & sel) #6a873eff
[Repeated 1 time(s)]
> color (#!2 & sel) #6b883eff
> color (#!2 & sel) #6b893eff
> color (#!2 & sel) #6a893bff
> color (#!2 & sel) #729440ff
> color (#!2 & sel) #6f9438ff
> color (#!2 & sel) #7fa940ff
> color (#!2 & sel) #7ea93eff
> color (#!2 & sel) #81ad3fff
> color (#!2 & sel) #81ad40ff
> color (#!2 & sel) #82ad40ff
> color (#!2 & sel) #83ad44ff
> color (#!2 & sel) #84ad46ff
> color (#!2 & sel) #85ad47ff
> color (#!2 & sel) #85ad48ff
> color (#!2 & sel) #84ac48ff
> color (#!2 & sel) #84ac49ff
> color (#!2 & sel) #83aa48ff
> color (#!2 & sel) #83aa49ff
> color (#!2 & sel) #82a848ff
[Repeated 2 time(s)]
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x1_vs_p2x3_atpvsapo.cxs
> ui tool show "Volume Viewer"
> view #1 clip false
> ui tool show "Side View"
> select clear
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> ui mousemode right "translate selected models"
> view matrix models
> #2,0.99966,-0.0070285,-0.025144,-66.455,0.0075343,0.99977,0.020078,-62.907,0.024997,-0.020261,0.99948,50.842
> view matrix models
> #2,0.99966,-0.0070285,-0.025144,-95.032,0.0075343,0.99977,0.020078,-92.032,0.024997,-0.020261,0.99948,51.977
> select add #1
16335 atoms, 16556 bonds, 6 pseudobonds, 2211 residues, 3 models selected
> select subtract #2
8208 atoms, 8300 bonds, 1155 residues, 4 models selected
> view matrix models
> #1,0.91064,-0.41292,-0.015188,42.06,0.41312,0.91057,0.013644,-107.48,0.008196,-0.018699,0.99979,-4.1826
> select add #4
16665 atoms, 16771 bonds, 4 pseudobonds, 2343 residues, 9 models selected
> select subtract #1
8457 atoms, 8471 bonds, 4 pseudobonds, 1188 residues, 8 models selected
> view matrix models
> #4,0.9542,-0.29805,0.025715,155.93,0.29496,0.95169,0.085287,-2.9279,-0.049892,-0.073796,0.99602,31.589
> select add #3
16239 atoms, 16336 bonds, 7 pseudobonds, 2253 residues, 12 models selected
> select subtract #4
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> view matrix models
> #3,0.07616,-0.98437,0.1588,265.56,-0.98229,-0.10141,-0.15755,271.6,0.17119,-0.14398,-0.97466,106.82
> ui mousemode right "rotate selected models"
> select subtract #3
Nothing selected
> select add #1
8208 atoms, 8300 bonds, 1155 residues, 1 model selected
> select subtract #1
3 models selected
> select add #1
8208 atoms, 8300 bonds, 1155 residues, 1 model selected
> view matrix models
> #1,0.91313,0.40568,0.040155,-122.69,-0.40731,0.91197,0.048961,47.658,-0.016758,-0.061063,0.99799,9.0464
> view matrix models
> #1,0.91271,0.40819,0.018434,-119.33,-0.4086,0.91206,0.034544,50.386,-0.0027121,-0.039061,0.99923,1.9092
> view matrix models
> #1,0.91165,0.41083,-0.011059,-114.52,-0.41065,0.91167,0.015048,54.235,0.016264,-0.0091769,0.99983,-7.5761
> view matrix models
> #1,0.86969,0.32471,-0.37175,-27.644,-0.21425,0.92684,0.30834,-37.99,0.44468,-0.18851,0.87563,-36.554
> view matrix models
> #1,0.90373,0.30164,-0.3038,-41.731,-0.18752,0.91683,0.35249,-48.992,0.38486,-0.26159,0.88513,-12.612
> view matrix models
> #1,0.91788,0.39355,-0.051185,-105.55,-0.39272,0.9193,0.025866,47.392,0.057234,-0.0036408,0.99835,-16.433
> view matrix models
> #1,0.92007,0.39111,-0.022211,-110.53,-0.38989,0.91976,0.044951,43.45,0.03801,-0.032698,0.99874,-7.2248
> view matrix models
> #1,0.92714,0.37472,0.00059351,-112.76,-0.37471,0.92711,0.0077751,45.498,0.0023632,-0.007431,0.99997,-5.1945
> view matrix models
> #1,0.96116,0.27596,-0.0049778,-99.832,-0.27594,0.96117,0.0037541,20.313,0.0058205,-0.0022347,0.99998,-6.859
> view matrix models
> #1,0.96153,0.27214,0.037334,-106.5,-0.27333,0.9614,0.031749,14.917,-0.027253,-0.040732,0.9988,7.1311
> view matrix models
> #1,0.94587,0.32188,0.041469,-113.53,-0.32324,0.94579,0.031581,27.721,-0.029055,-0.043276,0.99864,7.994
> view matrix models
> #1,0.94589,0.32297,0.031217,-111.97,-0.32376,0.94581,0.024778,28.995,-0.021523,-0.033544,0.99921,4.5744
> ui mousemode right select
> select clear
[Repeated 1 time(s)]
> select add #1
8208 atoms, 8300 bonds, 1155 residues, 1 model selected
> ui mousemode right "rotate selected models"
> view matrix models
> #1,0.94586,0.32174,0.042825,-113.74,-0.32318,0.94579,0.032233,27.597,-0.030133,-0.044328,0.99856,8.4183
> view matrix models
> #1,0.94575,0.32465,0.012952,-109.1,-0.32481,0.94569,0.013076,31.248,-0.0080032,-0.016573,0.99983,-1.4022
> view matrix models
> #1,0.86196,0.50615,0.02912,-129.7,-0.50659,0.86212,0.010295,83.305,-0.019895,-0.023626,0.99952,2.3246
> view matrix models
> #1,0.89904,0.43715,0.024885,-123.23,-0.43747,0.89919,0.0090018,62.918,-0.018441,-0.01898,0.99965,1.1386
> view matrix models
> #1,0.76586,0.64091,0.051941,-140.19,-0.64133,0.76719,-0.010341,131.34,-0.046477,-0.025391,0.9986,8.0513
> view matrix models
> #1,0.76585,0.64168,0.041559,-138.54,-0.6416,0.76686,-0.016996,132.6,-0.042776,-0.013647,0.99899,5.0351
> view matrix models
> #1,0.84312,0.53625,0.039723,-133.51,-0.53606,0.84403,-0.016271,97.117,-0.042253,-0.0075752,0.99908,3.7697
> ui mousemode right select
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/ATP_desensitized.png
> width 1267 height 820 supersample 4 transparentBackground true
> view #2 clip false
> save /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed.png
> width 1267 height 820 supersample 4 transparentBackground true
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> show sel surfaces
> select add #1
16335 atoms, 16556 bonds, 6 pseudobonds, 2211 residues, 6 models selected
> select subtract #2
8208 atoms, 8300 bonds, 1155 residues, 7 models selected
> show sel surfaces
> select subtract #1
6 models selected
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
Drag select of hP2X1_APO_PDBcheck_J224Bfac_AOfinal-04022024.pdb_B SES surface,
903 of 304040 triangles, cap near, 25 of 2051 triangles, 5 residues
> select clear
[Repeated 1 time(s)]
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_pore_bottomup.png
> width 1267 height 820 supersample 3
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_pore_bottomup.png
> width 1267 height 820 supersample 4 transparentBackground true
Drag select of hP2X1_APO_PDBcheck_J224Bfac_AOfinal-04022024.pdb_A SES surface,
65 of 303930 triangles, cap far, 2 of 3194 triangles,
hP2X1_APO_PDBcheck_J224Bfac_AOfinal-04022024.pdb_B SES surface, 111 of 304040
triangles, cap far, 2 of 3370 triangles
> select clear
[Repeated 1 time(s)]
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/ATP_desensitized_pore_bottomup.png
> width 1267 height 820 supersample 4 transparentBackground true
> hide #!1 models
> show #!1 models
> select add #1
8208 atoms, 8300 bonds, 1155 residues, 4 models selected
> select add #2
16335 atoms, 16556 bonds, 6 pseudobonds, 2211 residues, 18 models selected
> hide sel surfaces
> select subtract #2
8208 atoms, 8300 bonds, 1155 residues, 13 models selected
> select subtract #1
6 models selected
> select #1/C:344
7 atoms, 6 bonds, 1 residue, 1 model selected
> show sel atoms
> select #1/B:344
7 atoms, 6 bonds, 1 residue, 1 model selected
> show sel atoms
> select #1/A:344
7 atoms, 6 bonds, 1 residue, 1 model selected
> show sel atoms
> show sel surfaces
[Repeated 1 time(s)]
> hide sel surfaces
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/ATP_desensitized_pore_bottomup_ribbon.png
> width 1267 height 820 supersample 4 transparentBackground true
> select clear
[Repeated 1 time(s)]
> select #2/C:337
6 atoms, 5 bonds, 1 residue, 1 model selected
> select add #2/B:337
12 atoms, 10 bonds, 2 residues, 2 models selected
> select add #2/A:337
18 atoms, 15 bonds, 3 residues, 3 models selected
> show sel atoms
> select clear
> select #2/A:337@OG
1 atom, 1 residue, 1 model selected
> select add #2/C:337@OG
2 atoms, 2 residues, 2 models selected
> select add #2/B:337@OG
3 atoms, 3 residues, 3 models selected
> color (#!2 & sel) byhetero
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_pore_bottomup_ribbon.png
> width 1267 height 820 supersample 3
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_pore_bottomup_ribbon.png
> width 1267 height 820 supersample 4 transparentBackground true
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_pore_topdown_ribbon.png
> width 1267 height 820 supersample 4 transparentBackground true
> select #1/A:337
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #1/B:337
6 atoms, 5 bonds, 1 residue, 1 model selected
> select add #1/C:337
12 atoms, 10 bonds, 2 residues, 2 models selected
> select add #1/A:337
18 atoms, 15 bonds, 3 residues, 3 models selected
> show sel atoms
> select add #1/C:344
25 atoms, 21 bonds, 4 residues, 4 models selected
> select add #1/A:344
32 atoms, 27 bonds, 5 residues, 4 models selected
> select add #1/B:344
39 atoms, 33 bonds, 6 residues, 4 models selected
> color (#!1 & sel) byhetero
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/ATP_desensitized_pore_topdown_ribbon.png
> width 1267 height 820 supersample 4 transparentBackground true
> select add #2/A:344
7 atoms, 6 bonds, 1 residue, 1 model selected
> select add #2/C:344
14 atoms, 12 bonds, 2 residues, 2 models selected
> select add #2/B:344
21 atoms, 18 bonds, 3 residues, 3 models selected
> show sel atoms
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_pore_topdown_ribbon.png
> width 1267 height 820 supersample 4 transparentBackground true
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_pore_topdown_ribbon_occludedvaline.png
> width 1267 height 820 supersample 4 transparentBackground true
Drag select of 14 residues
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x1_vs_p2x3_atpvsapo.cxs
> select clear
[Repeated 1 time(s)]
> open /home/cryosparc/Downloads/hP2X1_ATP_PDBcheck_wHOLEpdb
'/home/cryosparc/Downloads/hP2X1_ATP_PDBcheck_wHOLEpdb' has no suffix
> open /home/cryosparc/Downloads/hP2X1_ATP_PDBcheck_HOLE.pdb
Chain information for hP2X1_ATP_PDBcheck_HOLE.pdb #5
---
Chain | Description
A B C | No description available
> select clear
> close #5
> open
> /home/cryosparc/Downloads/mole_channels_RVOv2xfU0qZVJNG249xQ_1_chimera.py
Traceback (most recent call last):
File
"/home/cryosparc/Downloads/mole_channels_RVOv2xfU0qZVJNG249xQ_1_chimera.py",
line 1, in <module>
import chimera, _surface, numpy
ModuleNotFoundError: No module named 'chimera'
Error opening python file
/home/cryosparc/Downloads/mole_channels_RVOv2xfU0qZVJNG249xQ_1_chimera.py
> select clear
> toolshed show
> open
> /home/cryosparc/Downloads/mole_channels_RVOv2xfU0qZVJNG249xQ_1_chimera.py
Traceback (most recent call last):
File
"/home/cryosparc/Downloads/mole_channels_RVOv2xfU0qZVJNG249xQ_1_chimera.py",
line 1, in <module>
import chimera, _surface, numpy
ModuleNotFoundError: No module named 'chimera'
Error opening python file
/home/cryosparc/Downloads/mole_channels_RVOv2xfU0qZVJNG249xQ_1_chimera.py
> open /home/cryosparc/Downloads/mole_channels_RVOv2xfU0qZVJNG249xQ_1.json
Opened 2 Mole channels in PDB
hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024
> close #5
> open /home/cryosparc/Downloads/mole_channels_RVOv2xfU0qZVJNG249xQ_1(1).json
Opened 2 Mole channels in PDB
hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024
> show #5.2 models
> hide #5.1 models
> ui mousemode right "translate selected models"
> select add #5.2
323 atoms, 323 residues, 1 model selected
> view matrix models #5.2,1,0,0,-47.263,0,1,0,-46.999,0,0,1,-3.4474
> view matrix models #5.2,1,0,0,-52.828,0,1,0,-41.204,0,0,1,-3.8898
> view matrix models #5.2,1,0,0,-51.66,0,1,0,-40.627,0,0,1,-5.7
> view matrix models #5.2,1,0,0,-51.844,0,1,0,-40.713,0,0,1,-6.0548
> view matrix models #5.2,1,0,0,-51.832,0,1,0,-40.675,0,0,1,-5.5998
> view matrix models #5.2,1,0,0,-51.986,0,1,0,-40.772,0,0,1,-5.5958
> view matrix models #5.2,1,0,0,-51.832,0,1,0,-40.675,0,0,1,-5.5998
> ui mousemode right select
> select clear
> select add #5.2
323 atoms, 323 residues, 1 model selected
> select clear
> select add #5.2
323 atoms, 323 residues, 1 model selected
> ui mousemode right "translate selected models"
> view matrix models #5.2,1,0,0,-51.649,0,1,0,-40.735,0,0,1,-5.5941
> view matrix models #5.2,1,0,0,-51.589,0,1,0,-40.876,0,0,1,-5.7035
> color byattribute radius #5 palette puor
732 atoms, 732 residues, atom radius range 0.655 to 9.01
> ui mousemode right select
> select clear
Drag select of 1 residues
> select clear
> ui mousemode right clip
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/ATP_desensitized_pore_radius_TMD.png
> width 1230 height 768 supersample 4 transparentBackground true
> open /home/cryosparc/Downloads/mole_channels_rNW6eTMFVkGlRkghodqdFg_33.json
Opened 1 Mole channels in hP2X1_APO_PDBcheck_J224Bfac_AOfinal-04022024.pdb
> select add #6.1
1110 atoms, 1110 residues, 1 model selected
> ui mousemode right "translate selected models"
> view matrix models #6.1,1,0,0,-86.184,0,1,0,-101.52,0,0,1,35.192
> view matrix models #6.1,1,0,0,-99.191,0,1,0,-90.349,0,0,1,49.809
> view matrix models #6.1,1,0,0,-98.428,0,1,0,-89.102,0,0,1,49.99
> view matrix models #6.1,1,0,0,-98.868,0,1,0,-87.438,0,0,1,52.332
> view matrix models
> #6.1,0.98789,-0.011134,0.15476,-117.34,0.033975,0.98874,-0.14574,-70.142,-0.1514,0.14923,0.97714,55.758
> view matrix models
> #6.1,0.97974,-0.19518,0.044925,-77.14,0.19457,0.98073,0.017758,-112.63,-0.047525,-0.0086574,0.99883,59.779
> view matrix models
> #6.1,0.97974,-0.19518,0.044925,-78.344,0.19457,0.98073,0.017758,-113.51,-0.047525,-0.0086574,0.99883,60.098
> view matrix models
> #6.1,0.97974,-0.19518,0.044925,-78.255,0.19457,0.98073,0.017758,-113.5,-0.047525,-0.0086574,0.99883,59.715
> color byattribute radius #6 palette puor
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> view matrix models
> #6.1,0.97974,-0.19518,0.044925,-78.338,0.19457,0.98073,0.017758,-113.77,-0.047525,-0.0086574,0.99883,59.893
> ui mousemode right select
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_pore_radius_TMD.png
> width 1230 height 768 supersample 4 transparentBackground true
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x1_vs_p2x3_atpvsapo.cxs
——— End of log from Thu Apr 4 16:42:23 2024 ———
opened ChimeraX session
> hide #6.1 models
> hide #!6 models
> hide #5.2 models
> show #5.2 models
> hide #5.2 models
> hide #!5 models
> ui tool show "Side View"
> select #1:atp
93 atoms, 99 bonds, 3 residues, 1 model selected
> show sel atoms
> style sel stick
Changed 93 atom styles
> ui mousemode right select
> select clear
> select #1/A:140
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #1/C:68
18 atoms, 16 bonds, 2 residues, 2 models selected
> select add #1/C:70
27 atoms, 24 bonds, 3 residues, 3 models selected
> select add #1/C:186
34 atoms, 30 bonds, 4 residues, 3 models selected
> select add #1/A:286
40 atoms, 35 bonds, 5 residues, 3 models selected
> select add #1/A:309
49 atoms, 43 bonds, 6 residues, 3 models selected
> show sel atoms
> color (#!1 & sel) byhetero
> hbonds limit by selection true
Expected a keyword
> hbonds limit by selection (true)
Expected a keyword
> hbonds limit by selection(true)
Expected a keyword
> hbonds restrict
Missing "restrict" keyword's argument
> hbonds restrict cross
0 hydrogen bonds found
> hbonds sel restrict cross
25 hydrogen bonds found
> hide
> hbonds delete sel
> hbonds delete ILE 107 N LYK 309 O
Expected a keyword
> select #1/C:188
11 atoms, 11 bonds, 1 residue, 1 model selected
> select clear
[Repeated 1 time(s)]
> ui windowfill toggle
[Repeated 1 time(s)]
> ~hbonds
> open 2gbp
Summary of feedback from opening 2gbp fetched from pdb
---
notes | Fetching compressed mmCIF 2gbp from
http://files.rcsb.org/download/2gbp.cif
Fetching CCD CA from
https://files.wwpdb.org/pub/pdb/refdata/chem_comp/A/CA/CA.cif
2gbp title:
Sugar and signal-transducer binding sites of the escherichia coli galactose
chemoreceptor protein [more info...]
Chain information for 2gbp #7
---
Chain | Description | UniProt
A | D-GALACTOSE/D-GLUCOSE BINDING PROTEIN | DGAL_ECOLI 1-309
Non-standard residues in 2gbp #7
---
BGC — beta-D-glucopyranose (beta-D-glucose; D-glucose; glucose)
CA — calcium ion
> hide #!7 models
> show #!7 models
> hide #!7 models
> close #7
> select #1:atp
93 atoms, 99 bonds, 3 residues, 1 model selected
> hbonds selRestrict protein
Expected a keyword
> hbonds selRestrict
Expected a keyword
> select add #1/A:286
99 atoms, 104 bonds, 4 residues, 4 models selected
> select add #1/A:140@CA
100 atoms, 104 bonds, 5 residues, 5 models selected
> select add #1/C:70
109 atoms, 112 bonds, 6 residues, 5 models selected
> select add #1/C:186
116 atoms, 118 bonds, 7 residues, 6 models selected
> select add #1/A:309
125 atoms, 126 bonds, 8 residues, 6 models selected
> select add #1/C:68
134 atoms, 134 bonds, 9 residues, 6 models selected
> hbonds selRestrict
Expected a keyword
> hbonds selRestrict cross
Expected a keyword
> hbonds selrestrict any
Expected a keyword
> hbonds selRestrict cross
Expected a keyword
> hbonds sel selRestrict cross
Expected a keyword
> hbonds sel selRestrict
Expected a keyword
> hbonds selRestrict sel cross
Expected a keyword
> hbonds selRestrict sel
Expected a keyword
> ui mousemode right distance
[Repeated 1 time(s)]
> hbonds sel
70 hydrogen bonds found
> undo
> ~hbonds
> ui mousemode right select
> select clear
> select #1/A:309@NZ
1 atom, 1 residue, 1 model selected
> select clear
> select add #1/A:309@NZ
1 atom, 1 residue, 1 model selected
> select clear
> select #1/C:70@NZ
1 atom, 1 residue, 1 model selected
> select subtract #1/C:70
1 model selected
> undo
[Repeated 5 time(s)]
> redo
[Repeated 1 time(s)]
> select add #1/A:309
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #1/C:68
18 atoms, 16 bonds, 2 residues, 2 models selected
> select add #1/C:70
27 atoms, 24 bonds, 3 residues, 3 models selected
> select add #1/A:140
36 atoms, 32 bonds, 4 residues, 3 models selected
> select add #1/C:232
44 atoms, 39 bonds, 5 residues, 3 models selected
> select subtract #1/C:232
36 atoms, 32 bonds, 4 residues, 3 models selected
> select add #1/C:186
43 atoms, 38 bonds, 5 residues, 3 models selected
> select add #1/A:286
49 atoms, 43 bonds, 6 residues, 3 models selected
> hbonds sel
28 hydrogen bonds found
> ui mousemode right distance
> distance #1/A:309@NZ #1/A:500@O2B
Distance between hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb #1/A
LYS 309 NZ and ATP 500 O2B: 2.967Å
> distance #1/A:286@OG #1/A:500@O1A
Distance between hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb #1/A
SER 286 OG and ATP 500 O1A: 2.617Å
> distance #1/C:68@NZ #1/A:500@O2A
Distance between hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb #1/C
LYS 68 NZ and /A ATP 500 O2A: 2.722Å
> distance #1/A:500@O2G #1/C:70@NZ
Distance between hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb #1/A
ATP 500 O2G and /C LYS 70 NZ: 3.407Å
> distance #1/A:500@O2' #1/A:140@NZ
Distance between hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb #1/A
ATP 500 O2' and LYS 140 NZ: 2.568Å
> distance #1/C:186@OG1 #1/A:500@N1
Distance between hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb #1/C
THR 186 OG1 and /A ATP 500 N1: 2.891Å
> ~hbonds
> ui tool show "Side View"
> ui mousemode right distance
> hide #8.1 models
> ui mousemode right select
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/ATP_desensitized_orthosteric_closeup_withdistance.png
> width 1267 height 820 supersample 4 transparentBackground true
> select clear
[Repeated 1 time(s)]Drag select of 4 residues
> view #2 clip false
> select add #1
8208 atoms, 8300 bonds, 6 pseudobonds, 1155 residues, 3 models selected
> select subtract #1
6 models selected
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> show sel surfaces
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_surface_orthosteric.png
> width 1267 height 820 supersample 4 transparentBackground true
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 4 models selected
> hide sel surfaces
> select clear
> select #2/A:309
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #2/A:140
18 atoms, 16 bonds, 2 residues, 2 models selected
> select add #2/C:68
27 atoms, 24 bonds, 3 residues, 2 models selected
> select add #2/C:70
36 atoms, 32 bonds, 4 residues, 3 models selected
> show sel atoms
> select add #2/C:186
43 atoms, 38 bonds, 5 residues, 3 models selected
> show sel atoms
> color (#!2 & sel) byhetero
> select #2/A:137
5 atoms, 4 bonds, 1 residue, 1 model selected
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_orthosteric_closeup.png
> width 1267 height 820 supersample 4 transparentBackground true
> view #3 clip false
> show #!4 target m
> show #!3 target m
> view #3 clip false
> view #4 clip false
> color #4.1 #f68f8fff
> color #4.1 #ff8181ff
> color #4.2 #700b0bff
> color #4.2 #880e0eff
> color #4.2 #860d0dff
> color #4.3 #090808ff
> color #4.3 #5f5656ff
> color #4.3 #665a5aff
> select #4:atp
129 atoms, 135 bonds, 3 residues, 3 models selected
> color sel dark gray
> color sel byhetero
> select clear
> select #4.3/A:413@NA
1 atom, 1 residue, 1 model selected
> color sel purple
> select clear
> select add #4.3
2819 atoms, 2821 bonds, 396 residues, 1 model selected
> select subtract #4.3
Nothing selected
> select add #4
8457 atoms, 8471 bonds, 4 pseudobonds, 1188 residues, 5 models selected
> show sel atoms
> hide sel atoms
> select #4:atp
129 atoms, 135 bonds, 3 residues, 3 models selected
> show sel atoms
> select add #4
8457 atoms, 8471 bonds, 4 pseudobonds, 1188 residues, 5 models selected
> show sel surfaces
> select #4:atp
129 atoms, 135 bonds, 3 residues, 3 models selected
> style sel sphere
Changed 129 atom styles
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/P2X3_atpdesensitized_surface_orthosteric.png
> width 1267 height 820 supersample 4 transparentBackground true
> select #4:atp
129 atoms, 135 bonds, 3 residues, 3 models selected
> style sel stick
Changed 129 atom styles
> select add #4
8457 atoms, 8471 bonds, 4 pseudobonds, 1188 residues, 10 models selected
> show sel atoms
> hide sel atoms
> hide sel surfaces
> select #4:atp
129 atoms, 135 bonds, 3 residues, 3 models selected
> show sel atoms
> select clear
> select #4.3/A:299
9 atoms, 8 bonds, 1 residue, 1 model selected
> show sel atoms
> select #4.3/A:274
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #4.3/A:275
6 atoms, 5 bonds, 1 residue, 1 model selected
> show sel atoms
> select #4.3/A:128
7 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> select #4.2/A:65
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #4.2/A:63
18 atoms, 16 bonds, 2 residues, 2 models selected
> show sel atoms
> select #4.2/A:172
7 atoms, 6 bonds, 1 residue, 1 model selected
> show sel atoms
> select add #4.2/A:65
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #4.2/A:63
25 atoms, 22 bonds, 3 residues, 2 models selected
> select add #4.3/A:275
31 atoms, 27 bonds, 4 residues, 3 models selected
> select add #4.3/A:299
40 atoms, 35 bonds, 5 residues, 4 models selected
> select add #4.3/A:128
47 atoms, 42 bonds, 6 residues, 4 models selected
> color (#!4.2-3 & sel) byhetero
> select clear
[Repeated 1 time(s)]
> select #4.3/A:279
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> hide sel atoms
> select #4.3/A:299
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #4.2/A:63
18 atoms, 16 bonds, 2 residues, 3 models selected
> select add #4.2/A:65
27 atoms, 24 bonds, 3 residues, 4 models selected
> select add #4.3/A:127
35 atoms, 32 bonds, 4 residues, 4 models selected
> select subtract #4.3/A:127
27 atoms, 25 bonds, 3 residues, 4 models selected
> select add #4.2/A:172
34 atoms, 31 bonds, 4 residues, 4 models selected
> select add #4.3/A:275
40 atoms, 36 bonds, 5 residues, 4 models selected
> hbonds sel reveal true
14 hydrogen bonds found
> ~hbonds
> select #4.3/A:518@O
1 atom, 1 residue, 1 model selected
> select #4.2/A:519@O
1 atom, 1 residue, 1 model selected
> select add #4.3/A:518@O
2 atoms, 2 residues, 2 models selected
> hide sel atoms
> select #4.3/A:281
11 atoms, 10 bonds, 1 residue, 1 model selected
> select add #4.3/A:279
19 atoms, 17 bonds, 2 residues, 2 models selected
> show sel atoms
> view #1 clip false
> select #1/A:290
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #1/A:292
19 atoms, 17 bonds, 2 residues, 2 models selected
> show sel atoms
> hbonds sel
10 hydrogen bonds found
> ui mousemode right distance
> distance #1/A:290@ND2 #1/A:500@O2B
Distance between hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb #1/A
ASN 290 ND2 and ATP 500 O2B: 2.984Å
> distance #1/A:292@NH1 #1/A:500@O3G
Distance between hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb #1/A
ARG 292 NH1 and ATP 500 O3G: 2.656Å
> distance #1/A:292@NH2 #1/A:500@O1G
Distance between hP2X1_ATP_PDBcheck_BfacCryosharp_AOfinal_04042024.pdb #1/A
ARG 292 NH2 and ATP 500 O1G: 3.143Å
> ~hbonds
> color (#!1 & sel) byhetero
> ui mousemode right select
> select #1/C:188
11 atoms, 11 bonds, 1 residue, 1 model selected
> show sel atoms
> hbonds sel
2 hydrogen bonds found
> ~hbonds
> hide sel atoms
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/ATP_desensitized_orthosteric_closeup_withdistance_2.png
> width 1267 height 820 supersample 4 transparentBackground true
> select #1/C:104
7 atoms, 6 bonds, 1 residue, 1 model selected
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/ATP_desensitized_orthosteric_closeup_withdistance_2.png
> width 1267 height 820 supersample 4 transparentBackground true
> show #!2 target m
> view #2 clip false
> select #2/A:292
11 atoms, 10 bonds, 1 residue, 1 model selected
> select add #2/A:290
19 atoms, 17 bonds, 2 residues, 2 models selected
> show sel atoms
> color (#!2 & sel) byhetero
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/APO_closed_orthosteric_closeup_2.png
> width 1267 height 820 supersample 4 transparentBackground true
> view #4 clip false
> select #4.3/A:279
8 atoms, 7 bonds, 1 residue, 1 model selected
Drag select of 1 residues
> select subtract #4.1/A:80
8 atoms, 7 bonds, 1 residue, 3 models selected
> select add #4.3/A:281
19 atoms, 17 bonds, 2 residues, 2 models selected
> color (#!4.3 & sel) byhetero
> select #4.2/A:95
9 atoms, 8 bonds, 1 residue, 1 model selected
> select clear
> select #4.3/A:158
8 atoms, 7 bonds, 1 residue, 1 model selected
> hide sel atoms
> select #4.3/A:272
6 atoms, 5 bonds, 1 residue, 1 model selected
> hide sel atoms
> select #4.2/A:63
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #4.2/A:65
18 atoms, 16 bonds, 2 residues, 2 models selected
> select add #4.2/A:172
25 atoms, 23 bonds, 3 residues, 3 models selected
> select add #4.3/A:127
33 atoms, 30 bonds, 4 residues, 3 models selected
> select subtract #4.3/A:127
25 atoms, 23 bonds, 3 residues, 4 models selected
> select add #4.3/A:128
32 atoms, 29 bonds, 4 residues, 3 models selected
> select add #4.3/A:279
40 atoms, 36 bonds, 5 residues, 4 models selected
> select add #4.3/A:299
49 atoms, 44 bonds, 6 residues, 4 models selected
> select add #4.3/A:281
60 atoms, 54 bonds, 7 residues, 4 models selected
> select add #4.3/A:275
66 atoms, 59 bonds, 8 residues, 4 models selected
> hbonds sel reveal true
20 hydrogen bonds found
> lighting shadows true
> lighting shadows false
> ui mousemode right distance
> distance #4.3/A:275@OG #4.3/A:401@O2A
Distance between p2x3_atpbound_desensitized.pdb1 #4.3/A SER 275 OG and ATP 401
O2A: 2.701Å
> distance #4.3/A:281@NH2 #4.3/A:401@O3G
Distance between p2x3_atpbound_desensitized.pdb1 #4.3/A ARG 281 NH2 and ATP
401 O3G: 2.332Å
> distance #4.3/A:299@NZ #4.3/A:401@O1G
Distance between p2x3_atpbound_desensitized.pdb1 #4.3/A LYS 299 NZ and ATP 401
O1G: 3.063Å
> distance #4.3/A:299@NZ #4.3/A:401@O1B
Distance between p2x3_atpbound_desensitized.pdb1 #4.3/A LYS 299 NZ and ATP 401
O1B: 3.096Å
> distance #4.3/A:279@ND2 #4.3/A:401@O1B
Distance between p2x3_atpbound_desensitized.pdb1 #4.3/A ASN 279 ND2 and ATP
401 O1B: 2.816Å
> ~hbonds
> ui mousemode right select
> select clear
> select #4.3/A:520@O
1 atom, 1 residue, 1 model selected
> select add #4.2/A:88
7 atoms, 5 bonds, 2 residues, 2 models selected
> select clear
> select #4.3/A:520@O
1 atom, 1 residue, 1 model selected
> select add #4.3/A:409@O1
2 atoms, 2 residues, 1 model selected
> select add #4.3/A:409@O2
3 atoms, 3 bonds, 2 residues, 1 model selected
> select add #4.3/A:518@O
4 atoms, 3 bonds, 3 residues, 1 model selected
> select add #4.2/A:519@O
5 atoms, 3 bonds, 4 residues, 2 models selected
> hide sel atoms
[Repeated 1 time(s)]
> select add #4.3/A:409@C2
6 atoms, 3 bonds, 4 residues, 2 models selected
> select add #4.3/A:409@C1
7 atoms, 3 bonds, 4 residues, 2 models selected
> hide sel atoms
> select #4.3/A:506@O
1 atom, 1 residue, 1 model selected
> hide sel atoms
> select #4.3/A:158
8 atoms, 7 bonds, 1 residue, 1 model selected
> hide sel atoms
> select #4.3/A:114
12 atoms, 12 bonds, 1 residue, 1 model selected
> hide sel atoms
> select clear
[Repeated 1 time(s)]
> select #4.3/A:272
6 atoms, 5 bonds, 1 residue, 1 model selected
> hide sel atoms
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/P2X3_atpdesensitized_orthosteric_closeup_withdistance.png
> width 1267 height 820 supersample 4 transparentBackground true
> view #3 clip false
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x1_vs_p2x3_atpvsapo_2.cxs
> view #1 clip false
> view #4 clip false
> select add #4
8457 atoms, 8471 bonds, 9 pseudobonds, 1188 residues, 6 models selected
> select subtract #4
3 models selected
> select add #4
8457 atoms, 8471 bonds, 9 pseudobonds, 1188 residues, 6 models selected
> select subtract #4
3 models selected
> select add #3
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> hide sel atoms
> color #3.1 #8f40bfff
> color #3.1 #4740bfff
> color #3.1 #8c40bfff
> color #3.1 #bb40bfff
> color #3.1 #4c40bfff
> color #3.1 #bfa740ff
> color #3.1 #bf7e40ff
> color #3.1 #cf7b2cff
> color #3.2 #7b5939ff
> color #3.3 #b99c80ff
> select clear
> select add #3.3
2594 atoms, 2619 bonds, 1 pseudobond, 355 residues, 2 models selected
> select subtract #3.3
Nothing selected
> select add #3
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> select subtract #3
Nothing selected
> select add #3
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> show sel surfaces
> select subtract #3
3 models selected
> hide #!8 models
> show #!8 models
> hide #!1 models
> hide #!2 models
> hide #!3 models
> show #!3 models
> show #!2 models
> show #!1 models
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x3_APO_closed_surface_orthosteric.png
> width 1267 height 820 supersample 4 transparentBackground true
> select add #8
14 pseudobonds, 2 models selected
> select subtract #8
Nothing selected
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> select subtract #2
3 models selected
> select add #3
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> select subtract #3
3 models selected
> select add #3
7782 atoms, 7865 bonds, 3 pseudobonds, 1065 residues, 7 models selected
> hide sel surfaces
> select clear
> select #3.1/A:64
7 atoms, 6 bonds, 1 residue, 1 model selected
> select #3.1/A:63
9 atoms, 8 bonds, 1 residue, 1 model selected
> select add #3.1/A:65
14 atoms, 12 bonds, 2 residues, 2 models selected
> select add #3.3/A:279
22 atoms, 19 bonds, 3 residues, 3 models selected
> select add #3.3/A:281
33 atoms, 29 bonds, 4 residues, 4 models selected
> select add #3.3/A:299
42 atoms, 37 bonds, 5 residues, 4 models selected
> select add #3.3/A:128
49 atoms, 44 bonds, 6 residues, 4 models selected
> select add #3.1/A:172
56 atoms, 50 bonds, 7 residues, 4 models selected
> select add #3.3/A:273
62 atoms, 55 bonds, 8 residues, 4 models selected
> select subtract #3.3/A:273
56 atoms, 50 bonds, 7 residues, 4 models selected
> select add #3.3/A:275
62 atoms, 55 bonds, 8 residues, 4 models selected
> show sel atoms
> color (#!3.1,3 & sel) byhetero
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x3_APO_closed_orthosteric_closeup.png
> width 1267 height 820 supersample 4 transparentBackground true
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_FinalSessions/p2x1_vs_p2x3_atpvsapo_2.cxs
——— End of log from Mon Apr 8 15:13:24 2024 ———
opened ChimeraX session
> ui tool show "Side View"
> select add #1.1
31 atoms, 1 residue, 1 model selected
> select subtract #1.1
1 model selected
> select add #1.2
31 atoms, 1 residue, 1 model selected
> select subtract #1.2
1 model selected
> select add #1.5
2576 atoms, 330 residues, 1 model selected
> select subtract #1.5
1 model selected
> color #1.5 #40bfbaff
> color #1.5 #75c4bfff
> color #1.5 #87c3bfff
> color #1.5 #49cac3ff
> color #1.5 #49b0caff
> color #1.5 #83a7b1ff
> color #1.5 #07bcebff
> color #1.5 #07ebaaff
> color #1.5 #0ee4a7ff
> select add #1.5
2576 atoms, 330 residues, 1 model selected
> color #1.5 lightgreen
> color (#!1 & sel) light sea green
> ui mousemode right select
> select clear
> select add #1.5
2576 atoms, 330 residues, 1 model selected
> color (#!1 & sel) orange red
> color (#!1 & sel) light sea green
> color (#!1 & sel) #40bf91ff
> color (#!1 & sel) #40bf96ff
> color (#!1 & sel) #40bfa5ff
> color (#!1 & sel) #40bf9bff
> color (#!1 & sel) #40bfa8ff
> color (#!1 & sel) #40bfabff
> color (#!1 & sel) #40bfa8ff
> color (#!1 & sel) #4091bfff
> color (#!1 & sel) #4067bfff
> color (#!1 & sel) #5b40bfff
> color (#!1 & sel) #5e40bfff
> color (#!1 & sel) #404ebfff
> color (#!1 & sel) #4081bfff
> color (#!1 & sel) #408cbfff
> color (#!1 & sel) #408ebfff
> color (#!1 & sel) #408cbfff
> color (#!1 & sel) #405abfff
> color (#!1 & sel) #4043bfff
> color (#!1 & sel) #4740bfff
> color (#!1 & sel) #4940bfff
> color (#!1 & sel) #4740bfff
> color (#!1 & sel) #4041bfff
> color (#!1 & sel) #4046bfff
> color (#!1 & sel) #4043bfff
> color (#!1 & sel) #4440bfff
> color (#!1 & sel) #7c7abfff
> color (#!1 & sel) #8482bfff
> color (#!1 & sel) #8785c4ff
> color (#!1 & sel) #9493c4ff
> color (#!1 & sel) #9391c2ff
> color (#!1 & sel) #9b9ac2ff
> color (#!1 & sel) #9695bcff
> color (#!1 & sel) #8785bcff
> color (#!1 & sel) #8a88bfff
> color (#!1 & sel) #5552bfff
> color (#!1 & sel) #5d58cfff
> color (#!1 & sel) #3c37cfff
> color (#!1 & sel) #3f39daff
> color (#!1 & sel) #2c26daff
> color (#!1 & sel) #2d27dfff
> color (#!1 & sel) #211adfff
> color (#!1 & sel) #211ae0ff
> color (#!1 & sel) #1c15e0ff
> color (#!1 & sel) #1c15e2ff
> color (#!1 & sel) #1f18e2ff
> color (#!1 & sel) #1f18e0ff
> color (#!1 & sel) #261fe0ff
> color (#!1 & sel) #231dd2ff
> color (#!1 & sel) #2a24d2ff
> color (#!1 & sel) #2520b6ff
> color (#!1 & sel) #2621b6ff
> color (#!1 & sel) #2520b0ff
> color (#!1 & sel) #3430b0ff
> color (#!1 & sel) #332fabff
> color (#!1 & sel) #403cabff
> color (#!1 & sel) #403dadff
> color (#!1 & sel) #423eadff
> color (#!1 & sel) #423eacff
> color (#!1 & sel) #4542acff
> color (#!1 & sel) #4340a6ff
> color (#!1 & sel) #4541a6ff
> color (#!1 & sel) #403d9cff
> color (#!1 & sel) #48459cff
> color (#!1 & sel) #4c49a5ff
> color (#!1 & sel) #5856a5ff
> color (#!1 & sel) #6b67c7ff
> color (#!1 & sel) #6a67c6ff
> color (#!1 & sel) #6864c6ff
> color (#!1 & sel) #6360bdff
> color (#!1 & sel) #605dbdff
> color (#!1 & sel) #5d5ab6ff
> color (#!1 & sel) #5955b6ff
> color (#!1 & sel) #5753b2ff
> color (#!1 & sel) #4b48b2ff
> color (#!1 & sel) #4844a9ff
> color (#!1 & sel) #4440a9ff
> color (#!1 & sel) #4340a8ff
> color (#!1 & sel) #433fa8ff
> color (#!1 & sel) #433fa7ff
> color (#!1 & sel) #423fa7ff
> color (#!1 & sel) #423fa8ff
> color (#!1 & sel) #413ea8ff
> color (#!1 & sel) #4440afff
> color (#!1 & sel) #4340afff
> color (#!1 & sel) #4440b0ff
> color (#!1 & sel) #4541b3ff
> color (#!1 & sel) #4440b3ff
> color (#!1 & sel) #4b46c5ff
> color (#!1 & sel) #4d48c5ff
> color (#!1 & sel) #4f4bcdff
> color (#!1 & sel) #4e4acdff
> color (#!1 & sel) #4f4bcfff
> color (#!1 & sel) #4e4acfff
> color (#!1 & sel) #5652cfff
> color (#!1 & sel) #5d58e0ff
> color (#!1 & sel) #5c58e0ff
> color (#!1 & sel) #5b57e0ff
> color (#!1 & sel) #5c57e2ff
> color (#!1 & sel) #5d58e5ff
> color (#!1 & sel) #605be5ff
> color (#!1 & sel) #615ce7ff
> color (#!1 & sel) #615ce6ff
[Repeated 2 time(s)]
> color #1.4 #40bf93ff
> color #1.4 #58ffc3ff
> select add #1.4
5152 atoms, 660 residues, 2 models selected
> select add #1.6
7728 atoms, 990 residues, 3 models selected
> select subtract #1.6
5152 atoms, 660 residues, 4 models selected
> select subtract #1.5
2576 atoms, 330 residues, 3 models selected
> color (#!1 & sel) #0ee4a7ff
> color (#!1 & sel) #40bf6dff
> color (#!1 & sel) #40bf79ff
> color (#!1 & sel) #40bf96ff
> color (#!1 & sel) #40bf98ff
> color (#!1 & sel) #40bf9bff
> color (#!1 & sel) #40bf9eff
> color (#!1 & sel) #3abf9cff
> color (#!1 & sel) #44dfb6ff
> color (#!1 & sel) #46dfb6ff
> color (#!1 & sel) #4cf1c6ff
[Repeated 1 time(s)]
> color (#!1 & sel) #4df4c8ff
> color (#!1 & sel) #51f4c9ff
> color (#!1 & sel) #52f7ccff
> color (#!1 & sel) #55f7cdff
> color (#!1 & sel) #56fbcfff
> color (#!1 & sel) #57fbd0ff
> color (#!1 & sel) #58fbd0ff
> color (#!1 & sel) #57facfff
> color (#!1 & sel) #4cfaccff
> color (#!1 & sel) #48eec2ff
> color (#!1 & sel) #46eec2ff
> color (#!1 & sel) #41dcb3ff
> color (#!1 & sel) #40dcb3ff
> color (#!1 & sel) #3ed7afff
> color (#!1 & sel) #3cd7aeff
> color (#!1 & sel) #3bd3abff
> color (#!1 & sel) #3ad3aaff
> color (#!1 & sel) #35c39dff
> color (#!1 & sel) #34be9aff
> color (#!1 & sel) #34be99ff
> color (#!1 & sel) #34bd99ff
> color (#!1 & sel) #33bc98ff
> color (#!1 & sel) #33bb97ff
> color (#!1 & sel) #31bb97ff
> color (#!1 & sel) #2eb390ff
> color (#!1 & sel) #33b391ff
> color (#!1 & sel) #2fa385ff
> color (#!1 & sel) #2fa485ff
> color (#!1 & sel) #30a989ff
> color (#!1 & sel) #33b392ff
> color (#!1 & sel) #34b593ff
[Repeated 3 time(s)]
> select clear
> select add #1.1
31 atoms, 1 residue, 1 model selected
> select subtract #1.1
1 model selected
> select add #1.2
31 atoms, 1 residue, 1 model selected
> select add #1.3
62 atoms, 2 residues, 2 models selected
> select add #1.1
93 atoms, 3 residues, 3 models selected
> show sel surfaces
> hide sel surfaces
> style sel sphere
Changed 93 atom styles
> select clear
> color sel byhetero
> select clear
[Repeated 2 time(s)]
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> select subtract #2
3 models selected
> select add #1
8208 atoms, 8300 bonds, 9 pseudobonds, 1155 residues, 2 models selected
> show sel atoms
> hide sel atoms
> show sel atoms
> hide sel atoms
> undo
[Repeated 4 time(s)]
> select 2:NAG
Expected an objects specifier or a keyword
> select 2:nag
Expected an objects specifier or a keyword
> select #2:NAG
210 atoms, 213 bonds, 15 residues, 1 model selected
> show sel atoms
> select #1:NAG
210 atoms, 216 bonds, 15 residues, 1 model selected
> show sel atoms
> select clear
> select #1:NAG
210 atoms, 216 bonds, 15 residues, 1 model selected
> color sel dark gray
> color sel byhetero
> select #1:CHS
Nothing selected
> select #1:chol
Nothing selected
> select #1:cholesterol
Nothing selected
Alignment identifier is 1
Alignment identifier is 2
Alignment identifier is 3.1/A
Alignment identifier is 3
Alignment identifier is 4.1/A
Alignment identifier is 4
> select add #1.6
2576 atoms, 330 residues, 1 model selected
> select subtract #1.6
1 model selected
> select add #1.5
2576 atoms, 330 residues, 1 model selected
> select subtract #1.5
1 model selected
> select add #1.4
2576 atoms, 330 residues, 1 model selected
> select subtract #1.4
1 model selected
> select add #1.3
31 atoms, 1 residue, 1 model selected
> select subtract #1.3
1 model selected
> select add #1.2
31 atoms, 1 residue, 1 model selected
> select subtract #1.2
1 model selected
> select add #2.1
6 pseudobonds, 1 model selected
> select subtract #2.1
Nothing selected
> select add #2.1
6 pseudobonds, 1 model selected
> select subtract #2.1
Nothing selected
> select add #2.1
6 pseudobonds, 1 model selected
> select subtract #2.1
Nothing selected
> select add #2.2
2437 atoms, 311 residues, 1 model selected
> select subtract #2.2
1 model selected
> select add #2.4
2437 atoms, 311 residues, 1 model selected
> select subtract #2.4
1 model selected
> select add #2.4
2437 atoms, 311 residues, 1 model selected
> select subtract #2.4
1 model selected
> select #1:y01
Nothing selected
> select #1:Y01
Nothing selected
> select Y01
Expected an objects specifier or a keyword
> select #1:Y
Nothing selected
> select #1:YO1
Nothing selected
> select #1:Y1
Nothing selected
> select #2:y01
504 atoms, 522 bonds, 6 residues, 1 model selected
> show sel atoms
> color sel dark gray
> color sel byhetero
> color sel yellow
> color sel #edd400ff
> color sel #fce94fff
> color sel #edd400ff
> color sel #c4a000ff
> color sel #bf9540ff
> color sel #bf9840ff
> color sel #bfa540ff
> color sel #bfaf40ff
> color sel #bfac40ff
> color sel #bfa240ff
> color sel #bf9040ff
> color sel #bf8640ff
> color sel #bf8340ff
> color sel #bf8640ff
> color sel #bf8840ff
> color sel #bf8b40ff
> color sel #bf9040ff
> color sel #bf9240ff
> color sel #bf9540ff
> color sel #bfa240ff
> color sel #bfac40ff
> color sel #bfb440ff
> color sel #bfb740ff
> color sel #bfb940ff
> color sel #bfb941ff
> color sel #bab43fff
> color sel #bab441ff
> color sel #c3bd44ff
> color sel #c3bd45ff
> color sel #dad44eff
> color sel #e5de52ff
> color sel #ece554ff
> color sel #ede655ff
> color sel #ece554ff
> color sel #dad44eff
> color sel #c9c348ff
> color sel #c5bf46ff
> color sel #bdb743ff
> color sel #b2ac3fff
> color sel #b2ac43ff
> color sel #afaa42ff
> color sel #afab4fff
[Repeated 1 time(s)]
> color sel #afab4eff
> color sel #b1ac4fff
> color sel #b1ac4dff
> color sel #b4af4fff
> color sel #b4af4eff
> color sel #b8b450ff
> color sel #b8b451ff
> color sel #bab551ff
> color sel #bab553ff
> color sel #bdb854ff
> color sel #bdb857ff
> color sel #c2bd59ff
> color sel #c2bd52ff
> color sel #c1bc52ff
> color sel #c1bc54ff
> color sel #c4be55ff
> color sel #c9c358ff
> color sel #d0cb5bff
> color sel #d6d05eff
> color sel #d6d15eff
> color sel #e1db63ff
> color sel #e1db65ff
> color sel #f1eb6dff
> color sel #f0e96cff
> color sel #f0ea6dff
> color sel #ddd764ff
> color sel #d5d061ff
> color sel #d3cd60ff
> color sel #d2cd5fff
> color sel #d0cb5eff
[Repeated 3 time(s)]
> color sel byhetero
> select clear
> select #2:y01
504 atoms, 522 bonds, 6 residues, 1 model selected
> color sel #bfa240ff
> color sel #bfa140ff
> color sel #bf9d40ff
> color sel #bf9a40ff
> color sel #bf9740ff
> color sel #bf9840ff
> color sel #bfa140ff
> color sel #bfa940ff
> color sel #bfab40ff
> color sel #bfad40ff
> color sel #bfb140ff
> color sel #bfb340ff
> color sel #bfb440ff
> color sel #bfb640ff
> color sel #bfb940ff
> color sel #bfbd40ff
> color sel #bcbf40ff
> color sel #b6bf40ff
> color sel #b4bf40ff
[Repeated 1 time(s)]
> color sel #b7bf40ff
> color sel #bdbf40ff
> color sel #bebf40ff
> color sel #bfbd40ff
> color sel #bfbc40ff
> color sel #bfba40ff
[Repeated 1 time(s)]
> color sel #bfb940ff
> color sel #bfba4aff
> color sel #beb849ff
> color sel #beb949ff
> color sel #beb94fff
> color sel #d8d35aff
> color sel #d8d362ff
> color sel #e4df67ff
> color sel #e4e07cff
> color sel #f2ee84ff
> color sel #f2ee89ff
> color sel #f5f18bff
> color sel #f5f190ff
> color sel #f4f08fff
> color sel #f4f09cff
> color sel #e5e192ff
> color sel #e5e29fff
> color sel #bebc85ff
> color sel #bebc88ff
> color sel #9d9b71ff
> color sel #9d9c72ff
> color sel #807f5dff
> color sel #807f5eff
> color sel #706f52ff
> color sel #6f6d51ff
> color sel #6f6d45ff
> color sel #75744aff
> color sel #757338ff
> color sel #7d7a3cff
> color sel #7d7a2fff
> color sel #827f31ff
> color sel #827f2eff
> color sel #837f2eff
> color sel #837f2dff
> color sel #84802eff
> color sel #848029ff
> color sel #908c2dff
> color sel #908b27ff
> color sel #aea930ff
> color sel #aea92bff
> color sel #c3bd30ff
> color sel #c3bd2aff
> color sel #d8d12fff
> color sel #d8d12bff
> color sel #e2db2dff
> color sel #e2db29ff
> color sel #e5dd2aff
> color sel #e5dd28ff
> color sel #e6de28ff
> color sel #e6de20ff
> color sel #e3db20ff
> color sel #e3db19ff
> color sel #d7cf18ff
> color sel #d7cf10ff
> color sel #c7c00fff
> color sel #c7bf0dff
> color sel #bdb60cff
> color sel #bdb60bff
> color sel #b7b00bff
> color sel #b7b00aff
> color sel #b1aa0aff
> color sel #b0a90aff
> color sel #afa80aff
> color sel #afa90bff
> color sel #b4ad0bff
> color sel #bbb40bff
> color sel #c9c20cff
> color sel #d9d10dff
> color sel #e0d80dff
[Repeated 1 time(s)]
> color sel #e9e00dff
> color sel #e7de0dff
> color sel #e7df0eff
> color sel #dad20dff
> color sel #c4bc0cff
> color sel #bdb60bff
> color sel #b7b00bff
> color sel #b3ad0bff
> color sel #b1aa0bff
> color sel #b2ab0bff
> color sel #b3ad0bff
[Repeated 3 time(s)]
> color sel byhetero
> select clear
> select #2:nag
210 atoms, 213 bonds, 15 residues, 1 model selected
> color sel #888a85ff
> color sel #d0cb5eff
> color sel #b3ad0bff
> color sel #888a85ff
> color sel #babdb6ff
> color sel #cc0000ff
> color sel #ef2929ff
> color sel byhetero
> color sel orange
> color sel #ad7fa8ff
> color sel #75507bff
> color sel #40a5bfff
> color sel #40a8bfff
> color sel #40bfbaff
> color sel #40bfb7ff
> color sel #40bf9eff
> color sel #40bf84ff
> color sel #40bf5aff
> color sel #40bf43ff
> color sel #a4bf40ff
> color sel #a6bf40ff
> color sel #40bf5dff
> color sel #40bfb0ff
> color sel #406abfff
> color sel #4048bfff
> color sel #4140bfff
> color sel #4440bfff
> color sel #4740bfff
> color sel #5140bfff
> color sel #5e40bfff
> color sel #6d40bfff
> color sel #8c40bfff
> color sel #9240bfff
> color sel #9440bfff
> color sel #9240bfff
> color sel #7340bfff
> color sel #6340bfff
> color sel #5140bfff
> color sel #4e40bfff
> color sel #2f1cbfff
> color sel #2f1cc0ff
> color sel #331cc0ff
> color sel #3f2ac0ff
> color sel #402ac3ff
> color sel #5543c3ff
> color sel #5845c8ff
> color sel #6a5bc8ff
> color sel #6c5cccff
> color sel #7567ccff
> color sel #7769cfff
> color sel #796bcfff
> color sel #7a6ccfff
> color sel #796bcfff
> color sel #6857cfff
> color sel #433885ff
> color sel #332685ff
> color sel #281d68ff
> color sel #251a68ff
> color sel #251a67ff
> color sel #201567ff
> color sel #26187aff
> color sel #21137aff
> color sel #2b199eff
> color sel #2b189eff
> color sel #341dbeff
> color sel #341dbfff
> color sel #351ebfff
> color sel #361fc4ff
> color sel #361fc5ff
> color sel #331bc5ff
> color sel #351cceff
> color sel #3117ceff
> color sel #361ae4ff
> color sel #361ae5ff
> color sel #371be5ff
> color sel #381ce5ff
> color sel #381ce3ff
> color sel #553ee3ff
> color sel #543ee1ff
> color sel #6a56e1ff
> color sel #6e5aebff
> color sel #715debff
> color sel #725eebff
> color sel #715debff
> color sel #705deaff
> color sel #705ceaff
> color sel #6f5ce9ff
> color sel #6853e9ff
> color sel #6651e4ff
> color sel #614be4ff
> color sel #5e49deff
> color sel #5c47deff
> color sel #5b46dbff
> color sel #5943dbff
> color sel #5843daff
> color sel #5842daff
> color sel #5843dbff
> color sel #5742dbff
> color sel #5843deff
[Repeated 3 time(s)]
> color sel byhetero
> color sel dim gray
> color sel #40bf48ff
> color sel #40bf4bff
> color sel #40bf5dff
> color sel #40bfa5ff
> color sel #40a0bfff
> color sel #405abfff
> color sel #6040bfff
> color sel #9240bfff
> color sel #9740bfff
> color sel #b340bfff
> color sel #bf40beff
> color sel #be40bfff
> color sel #a640bfff
> color sel #9c40bfff
> color sel #9740bfff
> color sel #9240bfff
> color sel #8f40bfff
> color sel #8b36bfff
> color sel #9b3cd5ff
> color sel #9a3cd5ff
> color sel #9c3fd5ff
> color sel #a04ad5ff
> color sel #a24bd8ff
> color sel #a759d8ff
> color sel #ad5ce0ff
> color sel #b166e0ff
> color sel #b76ae7ff
> color sel #b86ae7ff
> color sel #b86be8ff
> color sel #b869e8ff
> color sel #b668e6ff
> color sel #ae54e6ff
> color sel #9649c6ff
> color sel #9647c6ff
> color sel #9346c3ff
> color sel #9547c4ff
> color sel #9444c4ff
> color sel #a64dddff
> color sel #aa4ee2ff
> color sel #b56ae2ff
> color sel #bf70efff
> color sel #be70eeff
> color sel #bd6deeff
> color sel #bb6cebff
> color sel #b968ebff
> color sel #b666e7ff
> color sel #b460e7ff
> color sel #a658d5ff
> color sel #a657d5ff
> color sel #a456d3ff
[Repeated 2 time(s)]
> color sel byhetero
> select clear
[Repeated 1 time(s)]
> select #1:nag
210 atoms, 216 bonds, 15 residues, 1 model selected
> color sel purple
> color sel #75507bff
> color sel #ad7fa8ff
> color sel #75507bff
> color sel #a456d3ff
> color sel byhetero
> select clear
> select #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> color #2.2 #a9bf40ff
> color #2.2 #5bbf40ff
> color #2.2 #64d345ff
> select subtract #2
3 models selected
> select add #2.2
2437 atoms, 311 residues, 1 model selected
> select add #2.3
4874 atoms, 622 residues, 2 models selected
> select subtract #2.2
2437 atoms, 311 residues, 3 models selected
> color #2.3 #888a85ff
> color #2.3 #babdb6ff
> color (#!2 & sel) light gray
> color (#!2 & sel) dark gray
> color (#!2 & sel) dim gray
> select subtract #2.3
1 model selected
> select add #2.2
2437 atoms, 311 residues, 1 model selected
> color #2.2 #80bf40ff
> color #2.2 #40bf7cff
> color #2.2 #49bf40ff
> color #2.2 #78c372ff
> color #2.2 #59ef4cff
> color #2.2 #4cef6eff
> color #2.2 #22ee4dff
> color (#!2 & sel) forest green
> color (#!2 & sel) #73d216ff
> color (#!2 & sel) #7abf40ff
> color (#!2 & sel) #8abf40ff
> color (#!2 & sel) #a6bf40ff
> color (#!2 & sel) #a1bf40ff
> color (#!2 & sel) #9fbf40ff
> color (#!2 & sel) #9cbf40ff
> color (#!2 & sel) #97bf2fff
> color (#!2 & sel) #b3e237ff
> color (#!2 & sel) #b7e247ff
> color (#!2 & sel) #b4de46ff
> color (#!2 & sel) #b9de57ff
> color (#!2 & sel) #bbe058ff
> color (#!2 & sel) #bce05eff
> color (#!2 & sel) #c0e55fff
> color (#!2 & sel) #b8e542ff
> color (#!2 & sel) #c3f346ff
> color (#!2 & sel) #bef333ff
> color (#!2 & sel) #bbf329ff
> color (#!2 & sel) #baf228ff
> color (#!2 & sel) #bcf230ff
> color (#!2 & sel) #a5d42aff
> color (#!2 & sel) #b1d457ff
> color (#!2 & sel) #9fbe4eff
> color (#!2 & sel) #a5be66ff
> color (#!2 & sel) #98ae5eff
> color (#!2 & sel) #99ae61ff
> color (#!2 & sel) #93a75dff
> color (#!2 & sel) #96a769ff
> color (#!2 & sel) #6f7c4eff
> color (#!2 & sel) #6b7c40ff
> color (#!2 & sel) #586635ff
> color (#!2 & sel) #506617ff
> color (#!2 & sel) #6d8b1fff
> color (#!2 & sel) #6e8b22ff
> color (#!2 & sel) #b5e538ff
> color (#!2 & sel) #c9e57fff
> color (#!2 & sel) #e0ff8eff
> color (#!2 & sel) #e2ff97ff
> color (#!2 & sel) #dbf792ff
> color (#!2 & sel) #daf790ff
> color (#!2 & sel) #b6ce78ff
> color (#!2 & sel) #b5ce74ff
> color (#!2 & sel) #a1b767ff
> color (#!2 & sel) #9fb760ff
> color (#!2 & sel) #a1b961ff
> color (#!2 & sel) #a2b965ff
> color (#!2 & sel) #9eb562ff
> color (#!2 & sel) #9fb566ff
> color (#!2 & sel) #9bb164ff
[Repeated 2 time(s)]
> select subtract #2.2
1 model selected
> select add #2.1
6 pseudobonds, 1 model selected
> select subtract #2.1
Nothing selected
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> select subtract #2
3 models selected
> select add #2.4
2437 atoms, 311 residues, 1 model selected
> color (#!2 & sel) forest green
> color (#!2 & sel) #73bf40ff
> color (#!2 & sel) #6bbf40ff
> color (#!2 & sel) #60bf40ff
> color (#!2 & sel) #47bf40ff
> color (#!2 & sel) #40bf4eff
> color (#!2 & sel) #40bf50ff
> color (#!2 & sel) #40bf53ff
> color (#!2 & sel) #40bf6dff
> color (#!2 & sel) #40bf93ff
> color (#!2 & sel) #40bf77ff
> color (#!2 & sel) #5bbf40ff
> color (#!2 & sel) #75bf40ff
> color (#!2 & sel) #a4bf40ff
> color (#!2 & sel) #b1bf40ff
> color (#!2 & sel) #b8bf40ff
> color (#!2 & sel) #56bf40ff
> color (#!2 & sel) #40bf4eff
> color (#!2 & sel) #40bf58ff
> color (#!2 & sel) #40bf62ff
> color (#!2 & sel) #40bf65ff
> color (#!2 & sel) #40bf7fff
> color (#!2 & sel) #40bf8cff
> color (#!2 & sel) #40bf89ff
> color (#!2 & sel) #40bf67ff
> color (#!2 & sel) #40bf62ff
> color (#!2 & sel) #40bf5dff
> color (#!2 & sel) #40bf58ff
> color (#!2 & sel) #23bf41ff
> color (#!2 & sel) #1ea638ff
> color (#!2 & sel) #0ea62bff
> color (#!2 & sel) #0eab2cff
> color (#!2 & sel) #0bab29ff
> color (#!2 & sel) #0aab28ff
> color (#!2 & sel) #0aa928ff
> color (#!2 & sel) #06a925ff
> color (#!2 & sel) #05a323ff
> color (#!2 & sel) #02a320ff
> color (#!2 & sel) #01841aff
> color (#!2 & sel) #02841aff
> color (#!2 & sel) #027e19ff
> color (#!2 & sel) #077e1eff
> color (#!2 & sel) #055815ff
> color (#!2 & sel) #045814ff
> color (#!2 & sel) #0acf2fff
> color (#!2 & sel) #0be334ff
> color (#!2 & sel) #0ee336ff
> color (#!2 & sel) #0bb42bff
> color (#!2 & sel) #0eb42eff
> color (#!2 & sel) #096b1bff
> color (#!2 & sel) #075516ff
> color (#!2 & sel) #075616ff
> color (#!2 & sel) #075816ff
> color (#!2 & sel) #065816ff
> color (#!2 & sel) #076018ff
[Repeated 1 time(s)]
> color (#!2 & sel) #07691aff
> color (#!2 & sel) #097d1fff
> color (#!2 & sel) #097c1fff
[Repeated 1 time(s)]
> color (#!2 & sel) #097a1eff
> color (#!2 & sel) #067a1cff
> color (#!2 & sel) #067d1cff
> color (#!2 & sel) #077d1dff
> color (#!2 & sel) #0a7d1fff
> color (#!2 & sel) #0a7c1fff
> color (#!2 & sel) #0c7c21ff
> color (#!2 & sel) #0b7a20ff
> color (#!2 & sel) #0d7a22ff
[Repeated 3 time(s)]
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_ThirdSessions/overall_fourstructures.cxs
> select #2:y01
504 atoms, 522 bonds, 6 residues, 1 model selected
> select add #2
8127 atoms, 8256 bonds, 6 pseudobonds, 1056 residues, 2 models selected
> select subtract #2
3 models selected
> color #2.3 #40bf48ff
> color #2.3 #4ebf40ff
> color #2.3 #198d0aff
> select add #2.3
2437 atoms, 311 residues, 1 model selected
> color #2.3 #106106ff
> color (#!2 & sel) forest green
> color (#!2 & sel) #82bf40ff
> color (#!2 & sel) #68bf40ff
> color (#!2 & sel) #54bf40ff
> color (#!2 & sel) #4cbf40ff
> color (#!2 & sel) #49bf40ff
> color (#!2 & sel) #4cbf40ff
> color (#!2 & sel) #66bf40ff
> color (#!2 & sel) #85bf40ff
> color (#!2 & sel) #a6bf40ff
> color (#!2 & sel) #a9bf40ff
> color (#!2 & sel) #abbf40ff
> color (#!2 & sel) #8cbf40ff
> color (#!2 & sel) #47bf40ff
> color (#!2 & sel) #40bf4eff
> color (#!2 & sel) #40bf50ff
> color (#!2 & sel) #40bf7fff
> color (#!2 & sel) #40bf65ff
> color (#!2 & sel) #40bf55ff
> color (#!2 & sel) #40bf48ff
> color (#!2 & sel) #51bf40ff
> color (#!2 & sel) #54bf40ff
> color (#!2 & sel) #47bf31ff
> color (#!2 & sel) #358e24ff
> color (#!2 & sel) #2e8e1dff
> color (#!2 & sel) #2c871bff
> color (#!2 & sel) #238711ff
> color (#!2 & sel) #1e730fff
> color (#!2 & sel) #1c730dff
> color (#!2 & sel) #1c700cff
[Repeated 1 time(s)]
> color (#!2 & sel) #197009ff
> color (#!2 & sel) #197109ff
> color (#!2 & sel) #157104ff
> color (#!2 & sel) #167a04ff
> color (#!2 & sel) #157a02ff
> color (#!2 & sel) #168202ff
> color (#!2 & sel) #178203ff
> color (#!2 & sel) #198f03ff
> color (#!2 & sel) #1a8f04ff
> color (#!2 & sel) #1b9604ff
> color (#!2 & sel) #178004ff
> color (#!2 & sel) #178003ff
> color (#!2 & sel) #126303ff
> color (#!2 & sel) #116301ff
> color (#!2 & sel) #0e5301ff
> color (#!2 & sel) #0d5300ff
> color (#!2 & sel) #0b4700ff
[Repeated 1 time(s)]
> color (#!2 & sel) #083600ff
> color (#!2 & sel) #083400ff
> color (#!2 & sel) #083600ff
> color (#!2 & sel) #093601ff
> color (#!2 & sel) #0b4401ff
> color (#!2 & sel) #0b4400ff
> color (#!2 & sel) #0e5801ff
> color (#!2 & sel) #0e5800ff
> color (#!2 & sel) #106400ff
> color (#!2 & sel) #106900ff
[Repeated 1 time(s)]
> color (#!2 & sel) #116b00ff
> color (#!2 & sel) #116d00ff
> color (#!2 & sel) #116e00ff
> color (#!2 & sel) #136e02ff
> color (#!2 & sel) #186e08ff
> color (#!2 & sel) #176a08ff
> color (#!2 & sel) #1a6a0cff
> color (#!2 & sel) #1a680bff
> color (#!2 & sel) #1e6810ff
> color (#!2 & sel) #1d6510ff
> color (#!2 & sel) #226515ff
> color (#!2 & sel) #236516ff
> color (#!2 & sel) #236616ff
> color (#!2 & sel) #236617ff
> color (#!2 & sel) #256618ff
> color (#!2 & sel) #256719ff
> color (#!2 & sel) #2c6721ff
> color (#!2 & sel) #2d6922ff
> color (#!2 & sel) #336929ff
> color (#!2 & sel) #396930ff
> color (#!2 & sel) #37652fff
> color (#!2 & sel) #3b6534ff
> color (#!2 & sel) #3a6333ff
> color (#!2 & sel) #3e6337ff
> color (#!2 & sel) #3c6035ff
> color (#!2 & sel) #3e6038ff
> color (#!2 & sel) #3c5e36ff
> color (#!2 & sel) #3e5e39ff
> color (#!2 & sel) #40603aff
> color (#!2 & sel) #547e4cff
> color (#!2 & sel) #57824fff
> color (#!2 & sel) #57834fff
> color (#!2 & sel) #57824fff
> color (#!2 & sel) #4b7145ff
> color (#!2 & sel) #40603aff
> color (#!2 & sel) #3e5d38ff
> color (#!2 & sel) #3d5c38ff
> color (#!2 & sel) #3c5936ff
> color (#!2 & sel) #3c5a37ff
> color (#!2 & sel) #3d5b37ff
> color (#!2 & sel) #3d5c38ff
> color (#!2 & sel) #3c5c36ff
> color (#!2 & sel) #476c40ff
[Repeated 1 time(s)]
> color (#!2 & sel) #4e7747ff
> color (#!2 & sel) #4f7747ff
> color (#!2 & sel) #507a49ff
> color (#!2 & sel) #517a49ff
> color (#!2 & sel) #527a4bff
> color (#!2 & sel) #51794aff
> color (#!2 & sel) #52794bff
> color (#!2 & sel) #507549ff
[Repeated 1 time(s)]
> color (#!2 & sel) #4f7448ff
> color (#!2 & sel) #4e7348ff
> color (#!2 & sel) #4e7247ff
> color (#!2 & sel) #4d7146ff
> color (#!2 & sel) #50714aff
> color (#!2 & sel) #75a66cff
> color (#!2 & sel) #77a66eff
> color (#!2 & sel) #72a06aff
> color (#!2 & sel) #73a06bff
> color (#!2 & sel) #729f6aff
> color (#!2 & sel) #709f67ff
> color (#!2 & sel) #6e9c65ff
> color (#!2 & sel) #659c5bff
> color (#!2 & sel) #609c55ff
> color (#!2 & sel) #5f9a54ff
> color (#!2 & sel) #5d9a52ff
> color (#!2 & sel) #5b9650ff
> color (#!2 & sel) #568e4cff
> color (#!2 & sel) #548e49ff
> color (#!2 & sel) #4d8243ff
> color (#!2 & sel) #46823bff
> color (#!2 & sel) #407736ff
> color (#!2 & sel) #357728ff
> color (#!2 & sel) #316f26ff
> color (#!2 & sel) #2b6f1fff
> color (#!2 & sel) #317d23ff
> color (#!2 & sel) #337d25ff
> color (#!2 & sel) #419f30ff
> color (#!2 & sel) #469f36ff
> color (#!2 & sel) #4eb13cff
> color (#!2 & sel) #4eb03cff
> color (#!2 & sel) #4db03bff
> color (#!2 & sel) #4aa839ff
> color (#!2 & sel) #49a837ff
> color (#!2 & sel) #429932ff
> color (#!2 & sel) #419931ff
> color (#!2 & sel) #3b8a2cff
> color (#!2 & sel) #3b8a2dff
> color (#!2 & sel) #367f29ff
> color (#!2 & sel) #377f2aff
> color (#!2 & sel) #337627ff
> color (#!2 & sel) #347928ff
> color (#!2 & sel) #347927ff
> color (#!2 & sel) #357b28ff
[Repeated 1 time(s)]
> color (#!2 & sel) #378029ff
> color (#!2 & sel) #37802aff
> color (#!2 & sel) #3b882cff
> color (#!2 & sel) #3b882dff
> color (#!2 & sel) #3b892dff
> color (#!2 & sel) #3b882dff
[Repeated 2 time(s)]
> select add #2.1
2437 atoms, 6 pseudobonds, 311 residues, 3 models selected
> select subtract #2.1
2437 atoms, 311 residues, 2 models selected
> select add #2.1
2437 atoms, 6 pseudobonds, 311 residues, 3 models selected
> select subtract #2.3
4 pseudobonds, 2 models selected
> select add #2.3
2437 atoms, 4 pseudobonds, 311 residues, 2 models selected
> select subtract #2.3
4 pseudobonds, 2 models selected
> select add #2.3
2437 atoms, 4 pseudobonds, 311 residues, 2 models selected
> select subtract #2.3
4 pseudobonds, 2 models selected
> select add #2.4
2437 atoms, 4 pseudobonds, 311 residues, 2 models selected
> color (#!2 & sel) dim gray
> select clear
> select add #2.4
2437 atoms, 311 residues, 1 model selected
> color (#!2 & sel) #555753ff
[Repeated 2 time(s)]
> select clear
> select #2:y01
504 atoms, 522 bonds, 6 residues, 1 model selected
> color sel orange
> color sel byhetero
> select clear
> select #2:y01
504 atoms, 522 bonds, 6 residues, 1 model selected
> color sel orange red
> color sel byhetero
> select clear
> select #2/A:184
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> color (#!2 & sel) byhetero
> select #2/A:242
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> color (#!2 & sel) byhetero
> select clear
> select #2/B:300
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #2/C:300
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #2/A:300
24 atoms, 21 bonds, 3 residues, 3 models selected
> show sel atoms
> color (#!2 & sel) byhetero
> select #2/A:153
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> color (#!2 & sel) byhetero
> select #2/C:184
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> color (#!2 & sel) byhetero
> select #2/C:242
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> color (#!2 & sel) byhetero
> select #2/B:184
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> color (#!2 & sel) byhetero
> select #2/B:244
6 atoms, 5 bonds, 1 residue, 1 model selected
> select #2/B:242
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> color (#!2 & sel) byhetero
> select #2/B:153
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> color (#!2 & sel) byhetero
> select #2/C:153
8 atoms, 7 bonds, 1 residue, 1 model selected
> show sel atoms
> color (#!2 & sel) byhetero
> select clear
> select #1/B:242
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #1/C:242
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #1/A:242
24 atoms, 21 bonds, 3 residues, 3 models selected
> show sel atoms
> color (#!1 & sel) byhetero
> select #1/C:184
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #1/A:184
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #1/B:184
24 atoms, 21 bonds, 3 residues, 3 models selected
> show sel atoms
> color (#!1 & sel) byhetero
> select #1/B:153
8 atoms, 7 bonds, 1 residue, 1 model selected
> select add #1/A:153
16 atoms, 14 bonds, 2 residues, 2 models selected
> select add #1/C:153
24 atoms, 21 bonds, 3 residues, 3 models selected
> show sel atoms
> color (#!1 & sel) byhetero
> select clear
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_ThirdSessions/overall_fourstructures.cxs
——— End of log from Wed Apr 10 10:25:35 2024 ———
opened ChimeraX session
> show #!6 models
> hide #!6 models
> show #!5 models
> show #5.2 models
> hide #5.1 models
> show #!6 models
> hide #!6 models
> show #6.1 models
> select #2/A:416@CAT
1 atom, 1 residue, 1 model selected
> select clear
> select #2:y01
504 atoms, 522 bonds, 6 residues, 1 model selected
> hide sel atoms
> lighting soft qualityOfShadows finer multiShadow 256
> graphics silhouettes true
> set bgColor white
> select #2/C:337@OG
1 atom, 1 residue, 1 model selected
> select #2/C:337@OG
1 atom, 1 residue, 1 model selected
> select add #2/A:337
7 atoms, 5 bonds, 2 residues, 2 models selected
> select subtract #2/C:337
6 atoms, 5 bonds, 1 residue, 3 models selected
> select add #2/C:337
12 atoms, 10 bonds, 2 residues, 2 models selected
> select add #2/B:337
18 atoms, 15 bonds, 3 residues, 3 models selected
> select add #2/A:344
25 atoms, 21 bonds, 4 residues, 4 models selected
> select add #2/B:344
32 atoms, 27 bonds, 5 residues, 4 models selected
> select add #2/C:344
39 atoms, 33 bonds, 6 residues, 4 models selected
> color (#!2 & sel) byhetero
> select clear
[Repeated 1 time(s)]
> select #6.1/M:479@M
1 atom, 1 residue, 1 model selected
> select clear
> ui tool show "Render By Attribute"
> color byattribute a:radius #5.2 target scab palette
> 0.655,blue:4.834,white:9.013,red
323 atoms, 323 residues, atom radius range 0.655 to 9.01
> color byattribute a:radius #5.2 target scab palette
> 0.655,blue:4.834,white:9.013,red
323 atoms, 323 residues, atom radius range 0.655 to 9.01
> color byattribute a:radius #5.2 target scab palette
> 0.655,blue:4.834,white:9.013,red
323 atoms, 323 residues, atom radius range 0.655 to 9.01
> hide #6.1 models
> show #6.1 models
> ui tool show "Render By Attribute"
> color byattribute a:radius #6.1 target scab palette
> 0.48,blue:8.9435,white:17.407,red
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> color byattribute a:radius #6.1 target scab palette
> 0.48,blue:6.36213,red:8.9435,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> color byattribute a:radius #6.1 target scab palette
> 0.64927,red:6.48908,blue:8.9435,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> color byattribute a:radius #6.1 target scab palette
> 0.64927,red:6.2775,blue:8.9435,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_ThirdSessions/POREMOLEPLOT_APO.cxs
——— End of log from Wed Apr 10 11:02:15 2024 ———
opened ChimeraX session
> ui tool show "Render By Attribute"
> help help:user/tools/render.html
> ui tool show "Color Key"
> ui mousemode right "color key"
> key delete
> ui mousemode right select
> ui tool show "Render By Attribute"
> select add #6.1
1110 atoms, 1110 residues, 1 model selected
> ui tool show "Scale Bar"
> scalebar
> scalebar off
> ui tool show "Color Key"
> ui mousemode right "color key"
> key pos 0.523283,0.415854 size 0,0
> key pos 0.504341,0.459756 size 0,0
> key blue-white-red :min : :max
> key red-white-blue :max : :min
> key blue-white-red :min : :max
> key red-white-blue :max : :min
> key blue-white-red :min : :max
> key colorTreatment distinct
> key colorTreatment blended
> help help:user/tools/colorkey.html
> key delete
> ui mousemode right select
> select clear
> ui tool show "Render By Attribute"
> color byattribute a:radius #6.1 target scab palette
> 0.48,blue:6.19286,red:8.9435,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> color byattribute a:radius #6.1 target scab palette
> 0.48,red:6.15054,blue:8.9435,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> select #2/B:348
8 atoms, 7 bonds, 1 residue, 1 model selected
> select clear
Drag select of 326 atoms, 141 residues, 15 bonds
> color byattribute a:radius #6.1 & sel target scab palette
> 0.48,red:6.15054,blue:8.9435,white
305 atoms, 305 residues, atom radius range 0.48 to 5.78
> select clear
[Repeated 2 time(s)]
> color byattribute a:radius #6.1 target scab palette
> 0.48,red:6.15054,blue:8.9435,white noValueColor #82a848
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> color byattribute a:radius #6.1 target scab palette
> 0.48,red:6.15054,blue:8.9435,white noValueColor white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> color byattribute a:radius #6.1 target scab palette
> 0.48,red:6.15054,blue:8.9435,white noValueColor white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> ui tool show "Color Key"
> ui mousemode right "color key"
> ui tool show "Render By Attribute"
> color byattribute a:radius #6.1 target scab palette
> 0.48,red:2.8921,white:5.93896,blue
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> color byattribute a:radius #6.1 target scab palette
> 0.48,red:2.8921,white:5.93896,blue
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> key blue-white-red :6 : :max
> key blue-white-red :6 : :0
> key blue-white-red :6 : :0.
> key blue-white-red :6 : :0.4
> color byattribute a:radius #6.1 target scab palette
> 0.48,red:2.80746,blue:6.2775,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> color byattribute a:radius #6.1 target scab palette
> 0.48,red:2.80746,blue:5.76969,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> ui tool show "Render By Attribute"
> color byattribute a:radius #6.1 target scab palette
> 0.48,blue:6.19286,red:8.9435,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> color byattribute a:radius #6.1 target scab palette
> 0.522317,red:6.06591,blue:8.9435,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> color byattribute a:radius #6.1 target scab palette
> 0.4,red:5.94609,blue:8.96027,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> key blue-white-red :6 :8 :0.4
> key blue-white-red :6 :9 :0.4
> key white:6 white:9 red:0.4
> key white:6 blue:9 red:0.4
> key white:6 blue:9 white:0.4
> key red:6 blue:9 white:0.4
> key red:6 blue:9 white:9
> key red:6 blue:6 white:9
> key red:. blue:6 white:9
> key red:.4 blue:6 white:9
> select add #7
1 model selected
> undo
> select add #7
1 model selected
> key pos 0.902131,0.097561 size 0.0228887,0.440244
> undo
> color byattribute a:radius #6.1 target scab palette
> 0.4,red:5.94609,blue:9,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
> select add #7
1 model selected
> ui mousemode right "translate selected models"
> view matrix models #7,1,0,0,-0.31243,0,1,0,-2.7935,0,0,1,-8.2744
> hide #7 models
> show #7 models
> ui tool show "Scale Bar"
> ui tool show "Color Key"
> ui mousemode right "color key"
> key pos 0.89266,0.273171 size 0.00315706,0.156098
> view #7 clip false
[Repeated 1 time(s)]
> view #2 clip false
> key delete
> ui mousemode right "translate selected models"
> ui tool show "Render By Attribute"
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 745, in _set_value_cb
v = eval(self._value_entry.text())
File "<string>", line 1
.4'
^
SyntaxError: EOL while scanning string literal
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 747, in _set_value_cb
raise ValueError("Invalid histogram value")
ValueError: Invalid histogram value
ValueError: Invalid histogram value
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 747, in _set_value_cb
raise ValueError("Invalid histogram value")
See log for complete Python traceback.
> color byattribute a:radius #6.1 target scab palette
> 0.4,red:5.94609,blue:8.9035,white
1110 atoms, 1110 residues, atom radius range 0.48 to 17.4
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 642, in _redraw_cb
self._bins = left + filled_bins + right
ValueError: operands could not be broadcast together with shapes (2,) (520,)
ValueError: operands could not be broadcast together with shapes (2,) (520,)
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 642, in _redraw_cb
self._bins = left + filled_bins + right
See log for complete Python traceback.
> ui tool show "Color Key"
> ui mousemode right "color key"
> key blue:min white: white:max
> key blue:min blue: white:max
> key red:min blue: white:max
> key red:. blue: white:max
> key red:.4 blue: white:max
> key red:.4 blue: white:9
> key red:0.4 blue: white:9
> key pos 0.71000,0.08000
> key pos 0.72000,0.08000
> key pos 0.73000,0.08000
> key pos 0.72000,0.08000
> key pos 0.71000,0.08000
> key pos 0.70000,0.08000
> key pos 0.69000,0.08000
> key pos 0.68000,0.08000
> key pos 0.67000,0.08000
> key pos 0.66000,0.08000
> key pos 0.65000,0.08000
> key pos 0.64000,0.08000
> key pos 0.63000,0.08000
> key pos 0.636148,0.0987805 size 0.000789266,0.0439024
> key pos 0.840568,0.0939024 size 0.0213102,0.376829
> key pos 0.84057,0.10390
> key pos 0.84057,0.11390
> key pos 0.84057,0.12390
> key pos 0.84057,0.13390
> key pos 0.84057,0.14390
> key pos 0.84057,0.15390
> key pos 0.84057,0.16390
> key pos 0.84057,0.17390
> key pos 0.84057,0.18390
> key pos 0.84057,0.19390
> key pos 0.84057,0.20390
> key pos 0.84057,0.21390
> key pos 0.84057,0.22390
> key pos 0.84057,0.23390
> key pos 0.84057,0.24390
> key pos 0.84057,0.25390
> key pos 0.84057,0.26390
> key pos 0.84057,0.27390
> key pos 0.84057,0.28390
> key pos 0.84057,0.29390
> key pos 0.84057,0.30390
> key pos 0.84057,0.31390
> key pos 0.84057,0.32390
> key pos 0.84057,0.33390
> key pos 0.84057,0.34390
> key pos 0.84057,0.35390
> key pos 0.84057,0.36390
> key pos 0.84057,0.37390
> key pos 0.84057,0.38390
> key pos 0.84057,0.39390
> key pos 0.84057,0.40390
> key pos 0.83057,0.40390
> key pos 0.82057,0.40390
> key pos 0.81057,0.40390
> key pos 0.80057,0.40390
> key pos 0.79057,0.40390
> key pos 0.78057,0.40390
> key pos 0.77057,0.40390
> key pos 0.77057,0.41390
> key pos 0.77057,0.42390
> key pos 0.77057,0.43390
> key pos 0.77057,0.44390
> key red:0.4 blue:6 white:9
> ui mousemode right "translate selected models"
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_ThirdSessions/APO_moleplot.png
> width 1267 height 820 supersample 4 transparentBackground true
> save
> /home/cryosparc/Documents/Nic_p2x1_chimera_ThirdSessions/POREMOLEPLOT_APO.cxs
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 752, in _set_value_cb
self._redraw_cb()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 642, in _redraw_cb
self._bins = left + filled_bins + right
ValueError: operands could not be broadcast together with shapes (15,) (507,)
ValueError: operands could not be broadcast together with shapes (15,) (507,)
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 642, in _redraw_cb
self._bins = left + filled_bins + right
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 756, in _set_value_cb
self._move_cur_marker(v)
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 566, in _move_cur_marker
self._active_markers._update_plot()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 1176, in _update_plot
self._update_marker_coordinates()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 1161, in
_update_marker_coordinates
x, y = self._scene_xy(m.xy)
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 1044, in _scene_xy
return self.histogram._scene_xy(abs_xy)
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 508, in _scene_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 508, in _scene_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 179, in <lambda>
if event.modifiers() & mod_key_info("shift")[0] else
self._select_marker_cb(event)
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 710, in _select_marker_cb
self._set_sel_marker(marker, drag_start=event)
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 739, in _set_sel_marker
self._last_mouse_xy = self._abs_xy((drag_start.scenePos().x(),
drag_start.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 180, in <lambda>
self._hist_scene.mouseMoveEvent = lambda event: self._move_marker_cb(event) \
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 572, in _move_marker_cb
mouse_xy = self._abs_xy((event.scenePos().x(), event.scenePos().y()))
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 441, in _abs_xy
num_bins = len(self._bins)
See log for complete Python traceback.
Traceback (most recent call last):
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 756, in _set_value_cb
self._move_cur_marker(v)
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 566, in _move_cur_marker
self._active_markers._update_plot()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 1176, in _update_plot
self._update_marker_coordinates()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 1161, in
_update_marker_coordinates
x, y = self._scene_xy(m.xy)
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 1044, in _scene_xy
return self.histogram._scene_xy(abs_xy)
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 508, in _scene_xy
num_bins = len(self._bins)
TypeError: object of type 'function' has no len()
TypeError: object of type 'function' has no len()
File "/usr/lib/ucsf-chimerax-daily/lib/python3.9/site-
packages/chimerax/ui/widgets/histogram.py", line 508, in _scene_xy
num_bins = len(self._bins)
See log for complete Python traceback.
OpenGL version: 3.3.0 NVIDIA 545.23.08
OpenGL renderer: NVIDIA GeForce RTX 3090/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Python: 3.9.11
Locale: en_US.UTF-8
Qt version: PyQt6 6.4.2, Qt 6.4.2
Qt runtime version: 6.4.2
Qt platform: xcb
XDG_SESSION_TYPE=x11
DESKTOP_SESSION=ubuntu
XDG_SESSION_DESKTOP=ubuntu
XDG_CURRENT_DESKTOP=ubuntu:GNOME
DISPLAY=:1
Manufacturer: empty
Model: S8030GM4NE_2T
OS: Ubuntu 20.04 Focal Fossa
Architecture: 64bit ELF
Virtual Machine: none
CPU: 128 AMD EPYC 7702P 64-Core Processor
Cache Size: 512 KB
Memory:
total used free shared buff/cache available
Mem: 503Gi 15Gi 65Gi 59Mi 423Gi 485Gi
Swap: 2.0Gi 1.8Gi 171Mi
Graphics:
01:00.0 VGA compatible controller [0300]: NVIDIA Corporation Device [10de:2204] (rev a1)
Subsystem: ZOTAC International (MCO) Ltd. Device [19da:1613]
Kernel driver in use: nvidia
Installed Packages:
alabaster: 0.7.13
appdirs: 1.4.4
asttokens: 2.2.1
Babel: 2.11.0
backcall: 0.2.0
beautifulsoup4: 4.11.2
blockdiag: 3.0.0
build: 0.10.0
certifi: 2022.12.7
cftime: 1.6.2
charset-normalizer: 3.0.1
ChimeraX-AddCharge: 1.5.8
ChimeraX-AddH: 2.2.3
ChimeraX-AlignmentAlgorithms: 2.0.1
ChimeraX-AlignmentHdrs: 3.3.1
ChimeraX-AlignmentMatrices: 2.1
ChimeraX-Alignments: 2.9.2
ChimeraX-AlphaFold: 1.0
ChimeraX-AltlocExplorer: 1.0.3
ChimeraX-AmberInfo: 1.0
ChimeraX-Arrays: 1.1
ChimeraX-Atomic: 1.43.8
ChimeraX-AtomicLibrary: 10.0.4
ChimeraX-AtomSearch: 2.0.1
ChimeraX-AxesPlanes: 2.3.2
ChimeraX-BasicActions: 1.1.2
ChimeraX-BILD: 1.0
ChimeraX-BlastProtein: 2.1.2
ChimeraX-BondRot: 2.0.1
ChimeraX-BugReporter: 1.0.1
ChimeraX-BuildStructure: 2.8
ChimeraX-Bumps: 1.0
ChimeraX-BundleBuilder: 1.2.1
ChimeraX-ButtonPanel: 1.0.1
ChimeraX-CageBuilder: 1.0.1
ChimeraX-CellPack: 1.0
ChimeraX-Centroids: 1.3.2
ChimeraX-ChangeChains: 1.0.2
ChimeraX-CheckWaters: 1.3.1
ChimeraX-ChemGroup: 2.0.1
ChimeraX-Clashes: 2.2.4
ChimeraX-Clipper: 0.20.0
ChimeraX-ColorActions: 1.0.3
ChimeraX-ColorGlobe: 1.0
ChimeraX-ColorKey: 1.5.3
ChimeraX-CommandLine: 1.2.5
ChimeraX-ConnectStructure: 2.0.1
ChimeraX-Contacts: 1.0.1
ChimeraX-Core: 1.6.dev202302160243
ChimeraX-CoreFormats: 1.1
ChimeraX-coulombic: 1.4.2
ChimeraX-Crosslinks: 1.0
ChimeraX-Crystal: 1.0
ChimeraX-CrystalContacts: 1.0.1
ChimeraX-DataFormats: 1.2.3
ChimeraX-Dicom: 1.1
ChimeraX-DistMonitor: 1.3.3
ChimeraX-DockPrep: 1.1
ChimeraX-Dssp: 2.0
ChimeraX-EMDB-SFF: 1.0
ChimeraX-ESMFold: 1.0
ChimeraX-ExperimentalCommands: 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: 1.2.1
ChimeraX-HKCage: 1.3
ChimeraX-IHM: 1.1
ChimeraX-ImageFormats: 1.2
ChimeraX-IMOD: 1.0
ChimeraX-IO: 1.0.1
ChimeraX-ISOLDE: 1.6.dev1
ChimeraX-ItemsInspection: 1.0.1
ChimeraX-Label: 1.1.7
ChimeraX-LinuxSupport: 1.0.1
ChimeraX-ListInfo: 1.1.1
ChimeraX-Log: 1.1.5
ChimeraX-LookingGlass: 1.1
ChimeraX-Maestro: 1.8.2
ChimeraX-Map: 1.1.4
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: 2.0.11
ChimeraX-MDcrds: 2.6
ChimeraX-MedicalToolbar: 1.0.2
ChimeraX-Meeting: 1.0.1
ChimeraX-MLP: 1.1.1
ChimeraX-mmCIF: 2.11
ChimeraX-MMTF: 2.2
ChimeraX-Modeller: 1.5.8
ChimeraX-ModelPanel: 1.3.6
ChimeraX-ModelSeries: 1.0.1
ChimeraX-Mol2: 2.0
ChimeraX-Mole: 1.0
ChimeraX-Morph: 1.0.2
ChimeraX-MouseModes: 1.2
ChimeraX-Movie: 1.0
ChimeraX-Neuron: 1.0
ChimeraX-Nucleotides: 2.0.3
ChimeraX-OpenCommand: 1.10.1
ChimeraX-PDB: 2.6.13
ChimeraX-PDBBio: 1.0
ChimeraX-PDBLibrary: 1.0.2
ChimeraX-PDBMatrices: 1.0
ChimeraX-PickBlobs: 1.0.1
ChimeraX-Positions: 1.0
ChimeraX-PresetMgr: 1.1
ChimeraX-PubChem: 2.1
ChimeraX-ReadPbonds: 1.0.1
ChimeraX-Registration: 1.1.1
ChimeraX-RemoteControl: 1.0
ChimeraX-RenderByAttr: 1.0
ChimeraX-RenumberResidues: 1.1
ChimeraX-ResidueFit: 1.0.1
ChimeraX-RestServer: 1.1
ChimeraX-RNALayout: 1.0
ChimeraX-RotamerLibMgr: 3.0
ChimeraX-RotamerLibsDunbrack: 2.0
ChimeraX-RotamerLibsDynameomics: 2.0
ChimeraX-RotamerLibsRichardson: 2.0
ChimeraX-SaveCommand: 1.5.1
ChimeraX-SchemeMgr: 1.0
ChimeraX-SDF: 2.0.1
ChimeraX-Segger: 1.0
ChimeraX-Segment: 1.0.1
ChimeraX-SelInspector: 1.0
ChimeraX-SeqView: 2.8.1
ChimeraX-Shape: 1.0.1
ChimeraX-Shell: 1.0.1
ChimeraX-Shortcuts: 1.1.1
ChimeraX-ShowSequences: 1.0.1
ChimeraX-SideView: 1.0.1
ChimeraX-Smiles: 2.1
ChimeraX-SmoothLines: 1.0
ChimeraX-SpaceNavigator: 1.0
ChimeraX-StdCommands: 1.10.1
ChimeraX-STL: 1.0.1
ChimeraX-Storm: 1.0
ChimeraX-StructMeasure: 1.1.1
ChimeraX-Struts: 1.0.1
ChimeraX-Surface: 1.0.1
ChimeraX-SwapAA: 2.0.1
ChimeraX-SwapRes: 2.2.1
ChimeraX-TapeMeasure: 1.0
ChimeraX-Test: 1.0
ChimeraX-Toolbar: 1.1.2
ChimeraX-ToolshedUtils: 1.2.1
ChimeraX-Topography: 1.0
ChimeraX-Tug: 1.0.1
ChimeraX-UI: 1.27.1
ChimeraX-uniprot: 2.2.2
ChimeraX-UnitCell: 1.0.1
ChimeraX-ViewDockX: 1.2
ChimeraX-VIPERdb: 1.0
ChimeraX-Vive: 1.1
ChimeraX-VolumeMenu: 1.0.1
ChimeraX-VTK: 1.0
ChimeraX-WavefrontOBJ: 1.0
ChimeraX-WebCam: 1.0.2
ChimeraX-WebServices: 1.1.1
ChimeraX-Zone: 1.0.1
colorama: 0.4.6
comm: 0.1.2
contourpy: 1.0.7
cxservices: 1.2.2
cycler: 0.11.0
Cython: 0.29.33
debugpy: 1.6.6
decorator: 5.1.1
distro: 1.7.0
docutils: 0.19
executing: 1.2.0
filelock: 3.9.0
fonttools: 4.38.0
funcparserlib: 1.0.1
grako: 3.16.5
h5py: 3.8.0
html2text: 2020.1.16
idna: 3.4
ihm: 0.35
imagecodecs: 2022.9.26
imagesize: 1.4.1
importlib-metadata: 6.0.0
ipykernel: 6.21.1
ipython: 8.10.0
ipython-genutils: 0.2.0
ipywidgets: 8.0.4
jedi: 0.18.2
Jinja2: 3.1.2
jupyter-client: 8.0.2
jupyter-core: 5.2.0
jupyterlab-widgets: 3.0.5
kiwisolver: 1.4.4
line-profiler: 4.0.2
lxml: 4.9.2
lz4: 4.3.2
MarkupSafe: 2.1.2
matplotlib: 3.6.3
matplotlib-inline: 0.1.6
msgpack: 1.0.4
nest-asyncio: 1.5.6
netCDF4: 1.6.2
networkx: 2.8.8
numexpr: 2.8.4
numpy: 1.23.5
openvr: 1.23.701
packaging: 23.0
pandas: 1.5.3
ParmEd: 3.4.3
parso: 0.8.3
pep517: 0.13.0
pexpect: 4.8.0
pickleshare: 0.7.5
Pillow: 9.3.0
pip: 23.0
pkginfo: 1.9.6
platformdirs: 3.0.0
prompt-toolkit: 3.0.36
psutil: 5.9.4
ptyprocess: 0.7.0
pure-eval: 0.2.2
pycollada: 0.7.2
pydicom: 2.3.0
Pygments: 2.14.0
PyOpenGL: 3.1.5
PyOpenGL-accelerate: 3.1.5
pyparsing: 3.0.9
pyproject-hooks: 1.0.0
PyQt6-commercial: 6.4.2
PyQt6-Qt6: 6.4.2
PyQt6-sip: 13.4.1
PyQt6-WebEngine-commercial: 6.4.0
PyQt6-WebEngine-Qt6: 6.4.2
python-dateutil: 2.8.2
pytz: 2022.7.1
pyzmq: 25.0.0
qtconsole: 5.4.0
QtPy: 2.3.0
RandomWords: 0.4.0
requests: 2.28.2
scipy: 1.9.3
setuptools: 65.1.1
sfftk-rw: 0.7.3
six: 1.16.0
snowballstemmer: 2.2.0
sortedcontainers: 2.4.0
soupsieve: 2.4
sphinx: 6.1.3
sphinx-autodoc-typehints: 1.22
sphinxcontrib-applehelp: 1.0.4
sphinxcontrib-blockdiag: 3.0.0
sphinxcontrib-devhelp: 1.0.2
sphinxcontrib-htmlhelp: 2.0.1
sphinxcontrib-jsmath: 1.0.1
sphinxcontrib-qthelp: 1.0.3
sphinxcontrib-serializinghtml: 1.1.5
stack-data: 0.6.2
tables: 3.7.0
tcia-utils: 1.0.2
tifffile: 2022.10.10
tinyarray: 1.2.4
tomli: 2.0.1
tornado: 6.2
traitlets: 5.9.0
urllib3: 1.26.14
wcwidth: 0.2.6
webcolors: 1.12
wheel: 0.38.4
wheel-filename: 1.4.1
widgetsnbextension: 4.0.5
zipp: 3.13.0
Change History (2)
comment:1 by , 19 months ago
| Component: | Unassigned → UI |
|---|---|
| Owner: | set to |
| Platform: | → all |
| Project: | → ChimeraX |
| Status: | new → accepted |
| Summary: | ChimeraX bug report submission → Histogram widget: operands could not be broadcast together with shapes |
comment:2 by , 19 months ago
| Resolution: | → duplicate |
|---|---|
| Status: | accepted → closed |
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