[chimerax-users] saving PDB

[Noriega, Heather]

Hello,

I am going to attach my command line. OK, so I created a specific capsid
that is not all one monomer. It has 3 different monomers in a
specific ratio. I have toggled around with different options below to try
to save in PDB, the save option from my understanding should be the
selected only because this capsid was created using the matchmaker. I tried
display only as well just to try to see if that worked. I also have used
the relative model from biological assembly of 1LP3 and tried to save or
not save options and have kept all consistent with hybrid 36 (default). All
these options say "saved", however when i go to open any of them, they do
not at all. My objective is to save the whole capsid so when I open it I
can perform the density map to measure the volume inside. The weird part of
this is when I open these saved creations in Chimera they will open how I
want them to, but not in ChimeraX. I am not too sure why. Please help me
and I hope everyone is well, have a good night.

UCSF ChimeraX version: 1.3.dev202110160902 (2021-10-16)
© 2016-2021 Regents of the University of California. All rights reserved.
open "C:\Users\Haten\Documents\AAVgene\AAV 3B VP1 VP2 VP3 118.cxs" format
session
Log from Mon Nov 1 22:55:58 2021opened ChimeraX session
save "C:/Users/Haten/Documents/AAVgene/why wont you open.pdb" models #2-61
displayedOnly true relModel #1
close session
open "C:\Users\Haten\Documents\AAVgene\why wont you open.pdb" format pdb

UCSF ChimeraX version: 1.3.dev202110160902 (2021-10-16)
© 2016-2021 Regents of the University of California. All rights reserved.
open "C:\Users\Haten\Documents\AAVgene\AAV 3B VP1 VP2 VP3 118.cxs" format
session
Log from Mon Nov 1 22:55:58 2021opened ChimeraX session
save "C:/Users/Haten/Documents/AAVgene/why wont you open 2.pdb" models
#2-61 selectedOnly true
close session
open "C:\Users\Haten\Documents\AAVgene\why wont you open 2.pdb" format pdb

Thank you,

Heather Noriega
PhD-Pharmaceutical Science student
Howard University
heather.noriega at bison.howard.edu
520-203-1883
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