VMD-L Mailing List
From: Mayne, Christopher G (cmayne2_at_illinois.edu)
Date: Mon Nov 19 2012 - 18:46:09 CST
- Next message: Larry Guy: "Re: VMD can't display new PDB secondary structure properly (pyMol, jMol can)"
- Previous message: John Stone: "Re: MD very slow on a 8400M GS laptop (but not on a GT230M one) after NVidia driver update to 304.64 or 310.14"
- In reply to: Bennion, Brian: "RE: VMD can't display new PDB secondary structure properly (pyMol, jMol can)"
- Next in thread: Larry Guy: "Re: VMD can't display new PDB secondary structure properly (pyMol, jMol can)"
- Messages sorted by: [ date ] [ thread ] [ subject ] [ author ] [ attachment ]
I ran into something like this when I didn't have unique segnames assigned.
Chris
On Nov 19, 2012, at 6:31 PM, "Bennion, Brian" <Bennion1_at_llnl.gov<mailto:Bennion1_at_llnl.gov>> wrote:
Could it be that stride gives and error if the selection is too big? There is a limit of 10000 hbonds. Not sure how the other viewers calculate the cartoons.
brian
________________________________
From: owner-vmd-l_at_ks.uiuc.edu<mailto:owner-vmd-l_at_ks.uiuc.edu> [owner-vmd-l_at_ks.uiuc.edu<mailto:owner-vmd-l_at_ks.uiuc.edu>] on behalf of Larry Guy [gglarry0_at_gmail.com<mailto:gglarry0_at_gmail.com>]
Sent: Monday, November 19, 2012 2:00 PM
To: vmd-l_at_ks.uiuc.edu<mailto:vmd-l_at_ks.uiuc.edu>
Subject: vmd-l: VMD can't display new PDB secondary structure properly (pyMol, jMol can)
Hi all,
I hope that somebody here can help me solve a mystery regarding a newly released pdb 4G7O. Chain C of this protein can't be visualized using the ribbons or cartoon representations. Some smaller sections of chain C that I have removed and put in to a new pdb files show up fine in new cartoon representation. pyMol, jMol and other visualization software packages handle this structure with no problems, displaying all of chain C.
What could be happening in VMD that would cause this kind of problem in the cartoon representation of chain C?
Thanks in advance for your help!
- Next message: Larry Guy: "Re: VMD can't display new PDB secondary structure properly (pyMol, jMol can)"
- Previous message: John Stone: "Re: MD very slow on a 8400M GS laptop (but not on a GT230M one) after NVidia driver update to 304.64 or 310.14"
- In reply to: Bennion, Brian: "RE: VMD can't display new PDB secondary structure properly (pyMol, jMol can)"
- Next in thread: Larry Guy: "Re: VMD can't display new PDB secondary structure properly (pyMol, jMol can)"
- Messages sorted by: [ date ] [ thread ] [ subject ] [ author ] [ attachment ]