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#3572 closed defect (fixed)

Saving gltf: IndexError: tuple index out of range

Reported by:	kristen.browne@…	Owned by:	Tom Goddard
Priority:	normal	Milestone:
Component:	Input/Output	Version:
Keywords:		Cc:
Blocked By:		Blocking:
Notify when closed:		Platform:	all
Project:	ChimeraX

Description

The following bug report has been submitted:
Platform:        Windows-10-10.0.18362
ChimeraX Version: 1.0rc202005292300 (2020-05-29 23:00:06 UTC)
Description
Trying to save a .glb model.  When to File menu>Save>glb format.
I need to save .glb for each frame of a morph and fora  lipid bilayer, but any save brings this error.  
I tried to attach my cxs, but I think its too big so it gave an error.

Log:
UCSF ChimeraX version: 1.0rc202005292300 (2020-05-29)  
© 2016-2020 Regents of the University of California. All rights reserved.  

> open "G:\OneDrive - National Institutes of
> Health\Projects\PathogenAR\Modeling\SarsCoV2\SpikeMorph.cxs" format session

Log from Fri Jul 24 15:06:39 2020UCSF ChimeraX version: 1.0rc202005292300
(2020-05-29)  
© 2016-2020 Regents of the University of California. All rights reserved.  

> open "G:\OneDrive - National Institutes of
> Health\Projects\PathogenAR\Modeling\SarsCoV2\SpikeMorph.cxs" format session

Log from Mon Jun 1 14:21:31 2020UCSF ChimeraX version: 1.0rc202005292300
(2020-05-29)  
© 2016-2020 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> open "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/6vsb.pdb" "G:/OneDrive -
> National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/6vxx.pdb"

Summary of feedback from opening G:/OneDrive - National Institutes of
Health/Projects/PathogenAR/Modeling/SarsCoV2/6vsb.pdb  
---  
warning | Ignored bad PDB record found on line 26404  
END  
  
Summary of feedback from opening G:/OneDrive - National Institutes of
Health/Projects/PathogenAR/Modeling/SarsCoV2/6vxx.pdb  
---  
warning | Ignored bad PDB record found on line 27091  
END  
  
6vsb.pdb title:  
Prefusion 2019-ncov spike glycoprotein with A single receptor-binding domain
up [more info...]  
  
Chain information for 6vsb.pdb #1  
---  
Chain | Description  
A B C | sars-cov-2 spike glycoprotein  
  
Non-standard residues in 6vsb.pdb #1  
---  
NAG — N-acetyl-D-glucosamine  
  
6vxx.pdb title:  
Structure of the sars-cov-2 spike glycoprotein (closed state) [more info...]  
  
Chain information for 6vxx.pdb #2  
---  
Chain | Description  
A B C | sars-cov-2 spike glycoprotein  
  
Non-standard residues in 6vxx.pdb #2  
---  
NAG — N-acetyl-D-glucosamine  
  

> hide atoms

> hide cartoons

> hide cartoons

> delete pseudobonds

> hide #!2 models

> hide #!1 models

> show #!1 models

> show #!2 models

> show cartoons

> morph #1,2

Computed 21 frame morph #3  

> coordset #3 1,21

> surface #3

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/SpikeMorph.cxs"

opened ChimeraX session  

> open 6m0j

6m0j title:  
Crystal structure of SARS-CoV-2 spike receptor-binding domain bound with ACE2
[more info...]  
  
Chain information for 6m0j #4  
---  
Chain | Description  
A | Angiotensin-converting enzyme 2  
E | Spike receptor binding domain  
  
Non-standard residues in 6m0j #4  
---  
CL — chloride ion  
NAG — N-acetyl-D-glucosamine  
ZN — zinc ion  
  

> mmaker #4 to #1/a

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6vsb.pdb, chain A (#1) with 6m0j, chain E (#4), sequence alignment
score = 962.3  
RMSD between 145 pruned atom pairs is 0.777 angstroms; (across all 149 pairs:
0.911)  
  

> hide #!3-4 surfaces

> open 6xcm

6xcm title:  
Structure of the SARS-CoV-2 spike glycoprotein in complex with the C105
neutralizing antibody Fab fragment (state 1) [more info...]  
  
Chain information for 6xcm #5  
---  
Chain | Description  
A B C | Spike glycoprotein  
H N | C105 Fab Heavy Chain  
L S | C105 Fab Light Chain  
  
Non-standard residues in 6xcm #5  
---  
BMA — β-D-mannose  
FUC — α-L-fucose  
NAG — N-acetyl-D-glucosamine  
  

> hide #!3-5 atoms

> show #!3-5 cartoons

> split #5 chains

Chain information for 6xcm A #5.1  
---  
Chain | Description  
A | No description available  
  
Chain information for 6xcm B #5.2  
---  
Chain | Description  
B | No description available  
  
Chain information for 6xcm C #5.3  
---  
Chain | Description  
C | No description available  
  
Chain information for 6xcm H #5.4  
---  
Chain | Description  
H | No description available  
  
Chain information for 6xcm L #5.5  
---  
Chain | Description  
L | No description available  
  
Chain information for 6xcm N #5.6  
---  
Chain | Description  
N | No description available  
  
Chain information for 6xcm S #5.7  
---  
Chain | Description  
S | No description available  
  
Split 6xcm (#5) into 7 models  

> hide #!5.1 models

> show #!5.1 models

> hide #!5.1 models

> hide #!5.2 models

> hide #5.6 models

> hide #5.7 models

> close #5.6-7#5.1-2

> mmaker #5 to #4

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6m0j, chain E (#4) with 6xcm C, chain C (#5.3), sequence alignment
score = 1031.3  
RMSD between 186 pruned atom pairs is 0.884 angstroms; (across all 193 pairs:
1.027)  
  
Matchmaker 6m0j, chain E (#4) with 6xcm H, chain H (#5.4), sequence alignment
score = 27.4  
RMSD between 6 pruned atom pairs is 1.249 angstroms; (across all 58 pairs:
23.057)  
  
Matchmaker 6m0j, chain E (#4) with 6xcm L, chain L (#5.5), sequence alignment
score = 56.8  
RMSD between 5 pruned atom pairs is 1.633 angstroms; (across all 91 pairs:
25.077)  
  

> close #5.3

> hide #!3 models

> close #5

> open 6xcm

6xcm title:  
Structure of the SARS-CoV-2 spike glycoprotein in complex with the C105
neutralizing antibody Fab fragment (state 1) [more info...]  
  
Chain information for 6xcm #5  
---  
Chain | Description  
A B C | Spike glycoprotein  
H N | C105 Fab Heavy Chain  
L S | C105 Fab Light Chain  
  
Non-standard residues in 6xcm #5  
---  
BMA — β-D-mannose  
FUC — α-L-fucose  
NAG — N-acetyl-D-glucosamine  
  

> hide #!4-5 atoms

> show #!4-5 cartoons

> mmaker #5 to #4

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6m0j, chain E (#4) with 6xcm, chain C (#5), sequence alignment
score = 1043.9  
RMSD between 186 pruned atom pairs is 0.884 angstroms; (across all 193 pairs:
1.027)  
  

> split #5 chains

Chain information for 6xcm A #5.1  
---  
Chain | Description  
A | No description available  
  
Chain information for 6xcm B #5.2  
---  
Chain | Description  
B | No description available  
  
Chain information for 6xcm C #5.3  
---  
Chain | Description  
C | No description available  
  
Chain information for 6xcm H #5.4  
---  
Chain | Description  
H | No description available  
  
Chain information for 6xcm L #5.5  
---  
Chain | Description  
L | No description available  
  
Chain information for 6xcm N #5.6  
---  
Chain | Description  
N | No description available  
  
Chain information for 6xcm S #5.7  
---  
Chain | Description  
S | No description available  
  
Split 6xcm (#5) into 7 models  

> hide #!5.1 models

> hide #!5.2 models

> hide #!5.3 models

> hide #5.6 models

> hide #5.7 models

> show #!1 models

> show #5.4-5#!1,4 surfaces

> split #4 chains

Chain information for 6m0j A #4.1  
---  
Chain | Description  
A | No description available  
  
Chain information for 6m0j E #4.2  
---  
Chain | Description  
E | No description available  
  
Split 6m0j (#4) into 2 models  

> hide #4.2 models

> show #!1#!4.1#!5.4-5 surfaces

> hide #!5.5 models

> show #!5.5 models

> hide #!5.4 models

> show #!5.4 models

> hide #!4.1 models

> show #!4.1 models

> hide #!4.1 models

> show #!4.1 models

> hide #!5.4 models

> hide #!5.5 models

> color #4.1 sky blue

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/SpikeMorph.cxs"

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/ACE2_OPEN.glb"

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\ui\gui.py", line 1541, in <lambda>  
action.triggered.connect(lambda arg, cb = callback: cb())  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 102, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 113, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 48, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\run.py", line 31, in run  
results = command.run(text, log=log)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 66, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 79, in provider_save  
mgr).save(session, path, **provider_kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\\__init__.py", line 39, in save  
gltf.write_gltf(session, path, models, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 292, in write_gltf  
preserve_transparency)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 400, in nodes_and_meshes  
p0 = pos[0]  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
IndexError: tuple index out of range  
  
IndexError: tuple index out of range  
  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
  
See log for complete Python traceback.  
  

> hide #!4 models

> show #!4 models

> hide #!5 models

> hide #!1#!4.1 cartoons

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/ACE2_open.glb"

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\ui\gui.py", line 1541, in <lambda>  
action.triggered.connect(lambda arg, cb = callback: cb())  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 102, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 113, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 48, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\run.py", line 31, in run  
results = command.run(text, log=log)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 66, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 79, in provider_save  
mgr).save(session, path, **provider_kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\\__init__.py", line 39, in save  
gltf.write_gltf(session, path, models, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 292, in write_gltf  
preserve_transparency)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 400, in nodes_and_meshes  
p0 = pos[0]  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
IndexError: tuple index out of range  
  
IndexError: tuple index out of range  
  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
  
See log for complete Python traceback.  
  
Cannot determine format for 'G:/OneDrive'  
Cannot determine format for 'G:/OneDrive'  

> log metadata #1

No models had metadata

> select #4

6558 atoms, 6668 bonds, 3 pseudobonds, 4 models selected  

> select #1

22854 atoms, 23418 bonds, 1 model selected  

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/ACE2_Open.obj"

> hide #!4 models

> show #!5 models

> show #!5.4 models

> show #!5.5 models

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/SpikeAb_6xCM.obj"

> open 6m17

Summary of feedback from opening 6m17 fetched from pdb  
---  
warning | Unable to infer polymer connectivity due to unspecified label_seq_id
for residue "LEU" near line 27658  
note | Fetching compressed mmCIF 6m17 from
http://files.rcsb.org/download/6m17.cif  
  
6m17 title:  
The 2019-nCoV RBD/ACE2-B0AT1 complex [more info...]  
  
Chain information for 6m17 #6  
---  
Chain | Description  
A C | Sodium-dependent neutral amino acid transporter B(0)AT1  
B D | Angiotensin-converting enzyme 2  
E F | SARS-coV-2 Receptor Binding Domain  
  
Non-standard residues in 6m17 #6  
---  
NAG — N-acetyl-D-glucosamine  
ZN — zinc ion  
  

> hide sel cartoons

> hide sel atoms

> select #6

25344 atoms, 26082 bonds, 4 pseudobonds, 2 models selected  

> hide sel atoms

> show sel cartoons

> align #6 toAtoms #4

Unequal number of atoms to pair, 25344 and 6558  

> mmaker #6 to #4

Specify a single 'to' model only  

> close #4.2

> mmaker #6 to #4

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6m0j A, chain A (#4.1) with 6m17, chain B (#6), sequence alignment
score = 3019.3  
RMSD between 580 pruned atom pairs is 0.875 angstroms; (across all 595 pairs:
0.971)  
  

> hide #!5.4 models

> hide #!5.5 models

> hide #!4.1 models

> show #!4.1 models

> show sel cartoons

> hide sel surfaces

> hide #4.1.2 models

> select #4.1

4999 atoms, 5070 bonds, 3 pseudobonds, 2 models selected  

> show sel cartoons

> hide #4.1.1 models

> hide #!4.1 models

> split #6 chains

Chain information for 6m17 A #6.1  
---  
Chain | Description  
A | No description available  
  
Chain information for 6m17 B #6.2  
---  
Chain | Description  
B | No description available  
  
Chain information for 6m17 C #6.3  
---  
Chain | Description  
C | No description available  
  
Chain information for 6m17 D #6.4  
---  
Chain | Description  
D | No description available  
  
Chain information for 6m17 E #6.5  
---  
Chain | Description  
E | No description available  
  
Chain information for 6m17 F #6.6  
---  
Chain | Description  
F | No description available  
  
Split 6m17 (#6) into 6 models  

> hide #6.6 models

> show #6.1,3,5#!1#!6.2,4 surfaces

> hide #!6.5 models

> open C:/Users/brownekm/Downloads/6vsb_1_1_1.pdb
> C:/Users/brownekm/Downloads/6vxx_1_1_1.pdb

Chain information for 6vsb_1_1_1.pdb #7  
---  
Chain | Description  
A B C | No description available  
  
Chain information for 6vxx_1_1_1.pdb #8  
---  
Chain | Description  
A B C | No description available  
  

> mmaker #7 to #1

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6vsb.pdb, chain C (#1) with 6vsb_1_1_1.pdb, chain A (#7), sequence
alignment score = 5450.4  
RMSD between 684 pruned atom pairs is 0.969 angstroms; (across all 973 pairs:
9.631)  
  

> hide #1.4 models

> hide #1.3 models

> hide #1.2 models

> hide #1.1 models

> show #7-8#!1#!6.1-4 cartoons

> mmaker #7/a to #1/a

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6vsb.pdb, chain A (#1) with 6vsb_1_1_1.pdb, chain A (#7), sequence
alignment score = 5374.2  
RMSD between 927 pruned atom pairs is 0.663 angstroms; (across all 959 pairs:
0.955)  
  

> mmaker #8/a to #2/a

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6vxx.pdb, chain A (#2) with 6vxx_1_1_1.pdb, chain A (#8), sequence
alignment score = 5519.9  
RMSD between 952 pruned atom pairs is 0.522 angstroms; (across all 972 pairs:
0.636)  
  

> mmaker #8/a to #1/a

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6vsb.pdb, chain A (#1) with 6vxx_1_1_1.pdb, chain A (#8), sequence
alignment score = 5340  
RMSD between 683 pruned atom pairs is 0.881 angstroms; (across all 959 pairs:
9.023)  
  

> mmaker #8 to #7

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6vsb_1_1_1.pdb, chain C (#7) with 6vxx_1_1_1.pdb, chain A (#8),
sequence alignment score = 6351.2  
RMSD between 887 pruned atom pairs is 0.803 angstroms; (across all 1273 pairs:
2.362)  
  

> undo

> mmaker #8/a to #2/a

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6vxx.pdb, chain A (#2) with 6vxx_1_1_1.pdb, chain A (#8), sequence
alignment score = 5519.9  
RMSD between 952 pruned atom pairs is 0.522 angstroms; (across all 972 pairs:
0.636)  
  

> hide #!1 models

> hide #8 models

> select #7

72990 atoms, 74307 bonds, 1 model selected  

> show sel surfaces

> ~select #7

3 models selected  

> hide #!6 models

> hide #!4 models

> hide #!6.2 models

> hide #!6.3 models

> hide #!6.4 models

> hide #!6.1 models

> show #!5.5 models

> show #!5.4 models

> hide #!5 models

> hide #!5.4 models

> hide #!5.5 models

> hide #!7 models

> show #8 models

> show #8 surfaces

> hide #!8 models

> show #!7 models

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/SpikeMorph.cxs"

opened ChimeraX session  

> ui tool show "Show Sequence Viewer"

> show #!8 models

> hide #!8 models

> sequence chain #7/A #7/B #7/C #8/A #8/B #8/C

Alignment identifier is 1  

> color (#!7 & sel) white

> coordset slider #8

> coordset slider #3

> show #!3 models

> hide #!7 models

> hide #!3 models

> show #!7 models

> hide #!7 models

> show #!8 models

> show #!7 models

> undo

> undo

> undo

> undo

> undo

> undo

> undo

> undo

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> undo

> undo

> undo

> undo

> undo

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) red

> color (#!7 & sel) magenta

> color (#!7 & sel) magenta

> color (#!7 & sel) blue

> color (#!7 & sel) orange

> color (#!7 & sel) red

> undo

> undo

> redo

> color (#!7 & sel) forest green

> color (#!7 & sel) white

> color (#!7 & sel) white

> color (#!7 & sel) red

> color (#!7 & sel) magenta

> color (#!7 & sel) blue

> color (#!7 & sel) orange

> hide #8.1 models

> hide #8.2 models

> hide #8.3 models

> hide #7.3 models

> hide #7.2 models

> hide #7.1 models

> show #8.1 models

> show #7.1 models

> hide #!7 models

> hide #7.1 models

> show #7.1 models

> morph #7 to #8

Expected a keyword  

> show #8.3 models

> show #8.2 models

> show #7.3 models

> show #7.2 models

> morph #7 to 8

Expected a keyword  

> morph#7,8 frames 6

Unknown command: morph#7,8 frames 6  

> morph #7,8 frames 6

Computed 7 frame morph #9  

> coordset #9 1,7

> show #!7 models

> hide #!7 models

> hide #7.1 models

> hide #7.2 models

> hide #7.3 models

> hide #8.1 models

> hide #8.2 models

> hide #8.3 models

> hide pseudobonds

> hide pseudobonds

> select #9

70888 atoms, 72148 bonds, 34 pseudobonds, 2 models selected  

> hide pseudobonds

> ~select #9

Nothing selected  

> close #9

> show #!7 models

> split ligands

Chain information for 6vsb.pdb #1.1  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
  
Split 6vsb.pdb (#1) into 45 models  
Chain information for 6vxx.pdb #2.1  
---  
Chain | Description  
A B C | No description available  
  
Split 6vxx.pdb (#2) into 49 models  
Chain information for Morph - 6vsb.pdb #3.1  
---  
Chain | Description  
A | No description available  
B | No description available  
C | No description available  
  
Split Morph - 6vsb.pdb (#3) into 25 models  
Chain information for 6xcm A #5.1.1  
---  
Chain | Description  
A | No description available  
  
Split 6xcm A (#5.1) into 15 models  
Chain information for 6xcm B #5.2.1  
---  
Chain | Description  
B | No description available  
  
Split 6xcm B (#5.2) into 16 models  
Chain information for 6xcm C #5.3.1  
---  
Chain | Description  
C | No description available  
  
Split 6xcm C (#5.3) into 15 models  
Did not split 6xcm H, has only one piece  
Did not split 6xcm L, has only one piece  
Did not split 6xcm N, has only one piece  
Did not split 6xcm S, has only one piece  
Chain information for 6m0j A #4.1.1  
---  
Chain | Description  
A | No description available  
  
Split 6m0j A (#4.1) into 5 models  
Chain information for 6m17 B #6.2.1  
---  
Chain | Description  
B | No description available  
  
Split 6m17 B (#6.2) into 8 models  
Chain information for 6m17 C #6.3.1  
---  
Chain | Description  
C | No description available  
  
Split 6m17 C (#6.3) into 7 models  
Chain information for 6m17 D #6.4.1  
---  
Chain | Description  
D | No description available  
  
Split 6m17 D (#6.4) into 8 models  
Chain information for 6m17 E #6.5.1  
---  
Chain | Description  
E | No description available  
  
Split 6m17 E (#6.5) into 2 models  
Chain information for 6m17 F #6.6.1  
---  
Chain | Description  
F | No description available  
  
Split 6m17 F (#6.6) into 2 models  
Chain information for 6m17 A #6.1.1  
---  
Chain | Description  
A | No description available  
  
Split 6m17 A (#6.1) into 7 models  
Chain information for 6vsb_1_1_1.pdb #7.1  
---  
Chain | Description  
A B C | No description available  
  
Split 6vsb_1_1_1.pdb (#7) into 70 models  
Chain information for 6vxx_1_1_1.pdb #8.1  
---  
Chain | Description  
A B C | No description available  
  
Split 6vxx_1_1_1.pdb (#8) into 70 models  

> hide #7.70 models

> hide #7.69 models

> hide #7.68 models

> hide #7.67 models

> hide #7.66 models

> hide #7.64 models

> hide #7.2-70 target m

> hide #7.1 atoms

> show #8.1 models

> hide #7.1#8.1 atoms

> morph #7.1, 8.1 frames 6

Require at least 2 structures for morph  

> morph #7, 8 frames 6

models have different number of chains, 3 (Morph - 6vsb_1_1_1.pdb #/A,Morph -
6vsb_1_1_1.pdb #/B,Morph - 6vsb_1_1_1.pdb #/C) and 0 ()  

> close #7.2-70

> close #8.2-70

> morph #7, 8 frames 6

Computed 7 frame morph #9  

> coordset #9 1,7

> show #9 surfaces

> hide #!8 models

> hide #!7 models

> hide #!3 models

> hide #!2 models

> hide #!1 models

> select #9:1-685

31827 atoms, 32286 bonds, 1 model selected  

> color (#!9 & sel) red

> ui tool show "Show Sequence Viewer"

> sequence chain #7.1/A #7.1/B #7.1/C #8.1/A #8.1/B #8.1/C #9/A #9/B #9/C

Alignment identifier is 1  

> select #9:686-1273

26952 atoms, 27222 bonds, 1 model selected  

> color (#!9 & sel) orange

> select #9:1-25,
> 67-78,143-155,177-186,247-260,329-334,455-490,621-639,673-686,829-852

7848 atoms, 7929 bonds, 1 model selected  

> color (#!9 & sel) white

> select #9:1148-1171

1116 atoms, 1128 bonds, 1 model selected  

> color (#!9 & sel) forest green

> color (#!9 & sel) magenta

> select #9:1148-1171

1116 atoms, 1128 bonds, 1 model selected  

> select #9:1172-1213

2091 atoms, 2103 bonds, 1 model selected  

> color (#!9 & sel) magenta

> select #9:1214-1237

1182 atoms, 1197 bonds, 1 model selected  

> color (#!9 & sel) cyan

> color (#!9 & sel) purple

> select #9:1238-1273

1524 atoms, 1533 bonds, 1 model selected  

> color (#!9 & sel) purple

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/SpikeMorph.cxs"

> open "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/step4_lipid.pdb"

Summary of feedback from opening G:/OneDrive - National Institutes of
Health/Projects/PathogenAR/Modeling/SarsCoV2/step4_lipid.pdb  
---  
warnings | Ignored bad PDB record found on line 1  
REMARK GENERATED BY CHARMM-GUI (HTTP://WWW.CHARMM-GUI.ORG) V2.0 ON MAY, 08.
2020. JOB  
  
Ignored bad PDB record found on line 2  
REMARK REPLACE PACKED BIG SPHERES BY LIPID MOLECULES OF RANDOM CONFORMATION  
  
Ignored bad PDB record found on line 3  
REMARK DATE: 5/ 9/20 19:46:26 CREATED BY USER: apache  
  
Ignored bad PDB record found on line 336565  
TER 336562 TIP3 1283  
  
Chain information for step4_lipid.pdb #10  
---  
Chain | Description  
| No description available  
  

> mmaker #10 to #1

Specify a single 'to' model only  

> mmaker #10 to 1

> matchmaker #10 to 1

Invalid "to" argument: invalid atoms specifier  

> mmaker #10 to #1

Specify a single 'to' model only  

> mmaker #10 to #1.1

Parameters  
---  
Chain pairing | bb  
Alignment algorithm | Needleman-Wunsch  
Similarity matrix | BLOSUM-62  
SS fraction | 0.3  
Gap open (HH/SS/other) | 18/18/6  
Gap extend | 1  
SS matrix |  |  | H | S | O  
---|---|---|---  
H | 6 | -9 | -6  
S |  | 6 | -6  
O |  |  | 4  
Iteration cutoff | 2  
  
Matchmaker 6vsb.pdb, chain C (#1.1) with step4_lipid.pdb, chain (blank) (#10),
sequence alignment score = 4339.8  
RMSD between 680 pruned atom pairs is 0.965 angstroms; (across all 973 pairs:
9.662)  
  

> mmaker #10/A to #1.1/A

No molecules/chains to match specified  

> mmaker #10/A to #7.1/A

No molecules/chains to match specified  

> select #1.1

22000 atoms, 22503 bonds, 1 model selected  

> split chains

Did not split 6xcm H, has only one piece  
Did not split 6xcm L, has only one piece  
Did not split 6xcm N, has only one piece  
Did not split 6xcm S, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A FUC, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm B FUC, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C LEU, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 E NAG, has only one piece  
Did not split 6m17 F, has only one piece  
Did not split 6m17 F NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A LEU, has only one piece  
Chain information for 6vsb.pdb A #1.1.1  
---  
Chain | Description  
A | No description available  
  
Chain information for 6vsb.pdb B #1.1.2  
---  
Chain | Description  
B | No description available  
  
Chain information for 6vsb.pdb C #1.1.3  
---  
Chain | Description  
C | No description available  
  
Split 6vsb.pdb (#1.1) into 3 models  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Chain information for 6vxx.pdb A #2.1.1  
---  
Chain | Description  
A | No description available  
  
Chain information for 6vxx.pdb B #2.1.2  
---  
Chain | Description  
B | No description available  
  
Chain information for 6vxx.pdb C #2.1.3  
---  
Chain | Description  
C | No description available  
  
Split 6vxx.pdb (#2.1) into 3 models  
Chain information for Morph - 6vsb.pdb A #3.1.1  
---  
Chain | Description  
A | No description available  
  
Chain information for Morph - 6vsb.pdb B #3.1.2  
---  
Chain | Description  
B | No description available  
  
Chain information for Morph - 6vsb.pdb C #3.1.3  
---  
Chain | Description  
C | No description available  
  
Split Morph - 6vsb.pdb (#3.1) into 3 models  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split 6xcm A, has only one piece  
Did not split 6xcm B, has only one piece  
Did not split 6xcm C, has only one piece  
Did not split 6m0j A, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m17 B, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 C, has only one piece  
Did not split 6m17 D, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 E, has only one piece  
Did not split 6m17 A, has only one piece  
Chain information for 6vsb_1_1_1.pdb A #7.1.1  
---  
Chain | Description  
A | No description available  
  
Chain information for 6vsb_1_1_1.pdb B #7.1.2  
---  
Chain | Description  
B | No description available  
  
Chain information for 6vsb_1_1_1.pdb C #7.1.3  
---  
Chain | Description  
C | No description available  
  
Split 6vsb_1_1_1.pdb (#7.1) into 3 models  
Chain information for 6vxx_1_1_1.pdb A #8.1.1  
---  
Chain | Description  
A | No description available  
  
Chain information for 6vxx_1_1_1.pdb B #8.1.2  
---  
Chain | Description  
B | No description available  
  
Chain information for 6vxx_1_1_1.pdb C #8.1.3  
---  
Chain | Description  
C | No description available  
  
Split 6vxx_1_1_1.pdb (#8.1) into 3 models  
Chain information for Morph - 6vsb_1_1_1.pdb A #9.1  
---  
Chain | Description  
A | No description available  
  
Chain information for Morph - 6vsb_1_1_1.pdb B #9.2  
---  
Chain | Description  
B | No description available  
  
Chain information for Morph - 6vsb_1_1_1.pdb C #9.3  
---  
Chain | Description  
C | No description available  
  
Split Morph - 6vsb_1_1_1.pdb (#9) into 3 models  
Did not split step4_lipid.pdb, has only one piece  

> split lipids

Expected a structures specifier or a keyword  

> split ligands

Did not split 6xcm H, has only one piece  
Did not split 6xcm L, has only one piece  
Did not split 6xcm N, has only one piece  
Did not split 6xcm S, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A FUC, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm B FUC, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C LEU, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 E NAG, has only one piece  
Did not split 6m17 F, has only one piece  
Did not split 6m17 F NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A LEU, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split 6xcm A, has only one piece  
Did not split 6xcm B, has only one piece  
Did not split 6xcm C, has only one piece  
Did not split 6m0j A, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m17 B, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 C, has only one piece  
Did not split 6m17 D, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 E, has only one piece  
Did not split 6m17 A, has only one piece  
Chain information for step4_lipid.pdb #10.1  
---  
Chain | Description  
| No description available  
  
Split step4_lipid.pdb (#10) into 2591 models  
Did not split 6vsb.pdb A, has only one piece  
Did not split 6vsb.pdb B, has only one piece  
Did not split 6vsb.pdb C, has only one piece  
Did not split 6vxx.pdb A, has only one piece  
Did not split 6vxx.pdb B, has only one piece  
Did not split 6vxx.pdb C, has only one piece  
Did not split Morph - 6vsb.pdb A, has only one piece  
Did not split Morph - 6vsb.pdb B, has only one piece  
Did not split Morph - 6vsb.pdb C, has only one piece  
Did not split 6vsb_1_1_1.pdb A, has only one piece  
Did not split 6vsb_1_1_1.pdb B, has only one piece  
Did not split 6vsb_1_1_1.pdb C, has only one piece  
Did not split 6vxx_1_1_1.pdb A, has only one piece  
Did not split 6vxx_1_1_1.pdb B, has only one piece  
Did not split 6vxx_1_1_1.pdb C, has only one piece  
Did not split Morph - 6vsb_1_1_1.pdb A, has only one piece  
Did not split Morph - 6vsb_1_1_1.pdb B, has only one piece  
Did not split Morph - 6vsb_1_1_1.pdb C, has only one piece  

> select #10

336561 atoms, 336781 bonds, 4 pseudobonds, 2593 models selected  

> split ligands

Did not split 6xcm H, has only one piece  
Did not split 6xcm L, has only one piece  
Did not split 6xcm N, has only one piece  
Did not split 6xcm S, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split 6vxx.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A FUC, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm A NAG, has only one piece  
Did not split 6xcm B FUC, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm B NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6xcm C NAG, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C NAG, has only one piece  
Did not split 6m17 C LEU, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 E NAG, has only one piece  
Did not split 6m17 F, has only one piece  
Did not split 6m17 F NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A NAG, has only one piece  
Did not split 6m17 A LEU, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split Morph - 6vsb.pdb NAG, has only one piece  
Did not split 6xcm A, has only one piece  
Did not split 6xcm B, has only one piece  
Did not split 6xcm C, has only one piece  
Did not split 6m0j A, has only one piece  
Did not split 6m0j A NAG, has only one piece  
Did not split 6m17 B, has only one piece  
Did not split 6m17 B NAG, has only one piece  
Did not split 6m17 C, has only one piece  
Did not split 6m17 D, has only one piece  
Did not split 6m17 D NAG, has only one piece  
Did not split 6m17 E, has only one piece  
Did not split 6m17 A, has only one piece  
Did not split 6vsb.pdb A, has only one piece  
Did not split 6vsb.pdb B, has only one piece  
Did not split 6vsb.pdb C, has only one piece  
Did not split 6vxx.pdb A, has only one piece  
Did not split 6vxx.pdb B, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb POPS, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb POPS, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb POPS, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb POPS, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb POPS, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb POPS, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb POPS, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb POPS, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb POPS, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb POPS, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb POPS, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb POPS, has only one piece  
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Did not split step4_lipid.pdb DPPC, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb POPE, has only one piece  
Did not split step4_lipid.pdb POPE, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
Did not split step4_lipid.pdb DPPS, has only one piece  
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Did not split step4_lipid.pdb AMAN, has only one piece  
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Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
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Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb BGLC, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
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Did not split step4_lipid.pdb PSM, has only one piece  
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Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
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Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
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Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
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Did not split step4_lipid.pdb AMAN, has only one piece  
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Did not split step4_lipid.pdb POPC, has only one piece  
Did not split step4_lipid.pdb ANE5, has only one piece  
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Did not split step4_lipid.pdb CHL1, has only one piece  
Did not split step4_lipid.pdb CHL1, has only one piece  
Did not split step4_lipid.pdb CHL1, has only one piece  
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Did not split step4_lipid.pdb BGLC, has only one piece  
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Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
Did not split step4_lipid.pdb BGLC, has only one piece  
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Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb BGAL, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb BGAL, has only one piece  
Did not split step4_lipid.pdb BGAL, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AFUC, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb AMAN, has only one piece  
Did not split step4_lipid.pdb POPC, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb POPC, has only one piece  
Did not split step4_lipid.pdb DPPC, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb PSM, has only one piece  
Did not split step4_lipid.pdb DPPE, has only one piece  
Did not split step4_lipid.pdb, has only one piece  

> hide #!10.1 models

> hide #10.2 models

> show #10.2 models

> hide sel & #10.2-2591 atoms

> show sel & #10.2-2591 atoms

> combine #10.17-10.249

Unknown command: combine #10.17-10.249  

> ui tool show "Model Panel"

> ui tool show "Model Panel"

> combine

Unknown command: combine  

> hide #10.3 models

> hide #10.4 models

> hide #10.6-10 target m

> hide #10.2 target m

> show #10.2 models

> hide #10.2 models

> ~select #10.2

336383 atoms, 336597 bonds, 4 pseudobonds, 2592 models selected  

> ~select #10.1

272796 atoms, 273608 bonds, 2590 models selected  

> select #10

336561 atoms, 336781 bonds, 4 pseudobonds, 2593 models selected  

> select #9.3

19593 atoms, 19837 bonds, 1 model selected  

> select #10.5

178 atoms, 184 bonds, 1 model selected  

> hide #10.5 models

> hide #10.11 models

> hide #10.12 models

> hide #10.13 models

> select #10.14

137 atoms, 142 bonds, 1 model selected  

> hide #10.14-16 target m

> select #10.250

127 atoms, 126 bonds, 1 model selected  

> select #10.251

127 atoms, 126 bonds, 1 model selected  

> select #10.1376

122 atoms, 126 bonds, 1 model selected  

> hide #10.1376-1383,1385-1393 target m

> hide #10.1394 models

> select #10.1394

122 atoms, 126 bonds, 1 model selected  

> show #10.1394 models

> hide #10.1394 models

> hide #10.1422 target m

> hide #10.1457,1506,1588,1630,1670,1683-1699,1701-1705 target m

> select #10.1706

116 atoms, 120 bonds, 1 model selected  

> hide #10.1706 models

> select #10.1708

106 atoms, 109 bonds, 1 model selected  

> hide #10.1708-1714 target m

> select #10.1715

74 atoms, 77 bonds, 1 model selected  

> hide #10.2420-2425,2429-2538 target m

> select #10.2539

21 atoms, 21 bonds, 1 model selected  

> ~select #10.2539

Nothing selected  

> select #10.2539

21 atoms, 21 bonds, 1 model selected  

> hide #10.2426-2428,2539-2580 target m

> close #10.2420-2486

> hide #10.2-16#!10.1 target m

> close #10.2-16#10.1

> select #10.250

127 atoms, 126 bonds, 1 model selected  

> ~select #10.250

Nothing selected  

> undo

> close #10.1376-1383,1385-1394

> close
> #10.1344,1360,1422,1457,1506,1588,1630,1670,1683-1699,1701-1706,1708-1714

> select #10.2577

21 atoms, 21 bonds, 1 model selected  

> close #10.2487-2580

> close #10.1346

> select #10

258934 atoms, 259397 bonds, 2358 models selected  

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/SpikeMorph.cxs"

> show sel surfaces

> hide #!7.1 models

> show sel surfaces

> select #9

58779 atoms, 59511 bonds, 4 models selected  

> show sel surfaces

> hide sel cartoons

> select 9:1-685

Expected an objects specifier or a keyword  

> select #9:1-685

31827 atoms, 32286 bonds, 3 models selected  

> color (#!9.1-3 & sel) red

Alignment identifier is 1  

> select #9:686-1273

26952 atoms, 27222 bonds, 3 models selected  

> color (#!9.1-3 & sel) orange

> select
> #9:1-25,67-78,143-155,177-186,247-260,329-334,455-490,621-639,673-686,829-852

7848 atoms, 7929 bonds, 3 models selected  

> color (#!9.1-3 & sel) white

> select #9:1148-1171

1116 atoms, 1128 bonds, 3 models selected  

> color (#!9.1-3 & sel) forest green

> select #9:1172-1213

2091 atoms, 2103 bonds, 3 models selected  

> color (#!9.1-3 & sel) magenta

> select #91214-1237

Nothing selected  

> color #9-10#!1.1#!2.1#!3.1#!4.1#!5.1-3#!6.1-6#!8.1 cyan

> select #9:1214-1237

1182 atoms, 1197 bonds, 3 models selected  

> color (#!9.1-3 & sel) cyan

> select #9:1238-1273

1524 atoms, 1533 bonds, 3 models selected  

> color (#!9.1-3 & sel) purple

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/SpikeMorph.cxs"

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/SpikeInMembrane.glb"

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\ui\gui.py", line 1541, in <lambda>  
action.triggered.connect(lambda arg, cb = callback: cb())  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 102, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 113, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 48, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\run.py", line 31, in run  
results = command.run(text, log=log)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 66, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 79, in provider_save  
mgr).save(session, path, **provider_kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\\__init__.py", line 39, in save  
gltf.write_gltf(session, path, models, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 292, in write_gltf  
preserve_transparency)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 400, in nodes_and_meshes  
p0 = pos[0]  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
IndexError: tuple index out of range  
  
IndexError: tuple index out of range  
  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
  
See log for complete Python traceback.  
  
Cannot determine format for 'G:\OneDrive'  

> save C:\Users\brownekm\Desktop\spikeinmembrane.glb

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\cmd_line\tool.py", line 258, in execute  
cmd.run(cmd_text)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 66, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 79, in provider_save  
mgr).save(session, path, **provider_kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\\__init__.py", line 39, in save  
gltf.write_gltf(session, path, models, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 292, in write_gltf  
preserve_transparency)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 400, in nodes_and_meshes  
p0 = pos[0]  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
IndexError: tuple index out of range  
  
IndexError: tuple index out of range  
  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
  
See log for complete Python traceback.  
  

> hide #!10 models

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/Spike.glb"

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\ui\gui.py", line 1541, in <lambda>  
action.triggered.connect(lambda arg, cb = callback: cb())  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 102, in <lambda>  
lambda *args, ses=session: show_save_file_dialog(ses), tool_tip="Save output
file",  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 113, in show_save_file_dialog  
_dlg.display(session, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\dialog.py", line 48, in display  
run(session, cmd)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\run.py", line 31, in run  
results = command.run(text, log=log)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 66, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 79, in provider_save  
mgr).save(session, path, **provider_kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\\__init__.py", line 39, in save  
gltf.write_gltf(session, path, models, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 292, in write_gltf  
preserve_transparency)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 400, in nodes_and_meshes  
p0 = pos[0]  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
IndexError: tuple index out of range  
  
IndexError: tuple index out of range  
  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
  
See log for complete Python traceback.  
  

> show #!10 models

> hide #!9 models

> save C:\Users\brownekm\Desktop\membrane.glb

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\cmd_line\tool.py", line 258, in execute  
cmd.run(cmd_text)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 66, in cmd_save  
Command(session, registry=registry).run(provider_cmd_text, log=log)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\core\commands\cli.py", line 2805, in run  
result = ci.function(session, **kw_args)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\save_command\cmd.py", line 79, in provider_save  
mgr).save(session, path, **provider_kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\\__init__.py", line 39, in save  
gltf.write_gltf(session, path, models, **kw)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 292, in write_gltf  
preserve_transparency)  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\gltf\gltf.py", line 400, in nodes_and_meshes  
p0 = pos[0]  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
IndexError: tuple index out of range  
  
IndexError: tuple index out of range  
  
File "C:\Program Files\ChimeraX 1.0rc202005292300\bin\lib\site-
packages\chimerax\geometry\place.py", line 737, in __getitem__  
return self.place_list()[i]  
  
See log for complete Python traceback.  
  

> save "G:/OneDrive - National Institutes of
> Health/Projects/PathogenAR/Modeling/SarsCoV2/SpikeMorph.cxs"




OpenGL version: 3.3.0 NVIDIA 445.87
OpenGL renderer: GeForce GTX TITAN X/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: BOXX Technologies, Inc
Model: APEXX 4 7403
OS: Microsoft Windows 10 Enterprise (Build 18363)
Memory: 137,334,149,120
MaxProcessMemory: 137,438,953,344
CPU: 16 Intel(R) Core(TM) i7-5960X CPU @ 3.00GHz"
PyQt version: 5.12.3
Compiled Qt version: 5.12.4
Runtime Qt version: 5.12.8

Change History (2)

comment:1 by Tom Goddard, 5 years ago

Component:	Unassigned → Input/Output
Owner:	set to Tom Goddard
Platform:	→ all
Project:	→ ChimeraX
Status:	new → assigned
Summary:	ChimeraX bug report submission → Saving gltf: IndexError: tuple index out of range

comment:2 by Tom Goddard, 5 years ago

Resolution:	→ fixed
Status:	assigned → closed

Fixed.

If any model was undisplayed the saving GLTF format gave this error. Surprising this was not reported before. Saving GLTF must not be used much.

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