This would be great. I'm more than a bit rusty with programming, so I'm
not sure I'd be able to figure out how to build a pymol plugin. But I'd be
happy to provide the cgo generating script or answer questions about reduce
or probe.
-bob
On Wed, Oct 22, 2014 at 2:11 PM, Tim Schulte wrote:
> H
Tim: Good suggestion, I would second this effort. Thanks for raising the issue
Cheers,
Carsten
From: Tim Schulte [mailto:tim.schu...@ki.se]
Sent: Wednesday, October 22, 2014 2:11 PM
To: pymol-users@lists.sourceforge.net
Subject: Re: [PyMOL] How to draw clashes in pymol -> integration/plug-in
Hej everybody,
my question is related to this post.
I am just analyzing a structure and really like the way Molprobity puts
out information about hydrogen bonds and vdW contacts and so on.
It is also possible to take advantage of this analysis in phenix
during/after refinement, because Coot pr
Hi Bondurant,
I really like the merging of the graphic beauty of pymol with the detailed
depictions of reduce and probe. I have a method that is a bit clunky for
doing what you ask, but I don't know if it ever made it to the mainstream
in MolProbity. The caveat of wanting to work with a ligand m
Why don't you to modify the show_bump.py file?
You could try playing with the line
cmd.show_as('cgo', name)
and change cgo to, for exemple, dots
and see what happens.
Cheers
On 8/29/14 4:30 PM, Bondurant wrote:
> Hello community,
> I would like to draw a figure similar to this one
> http://www.ce
Hello community,
I would like to draw a figure similar to this one
http://www.cell.com/cms/attachment/615980/4968633/gr1.jpg
showing the clashes between a potential ligand and the protein. The only
way i know how to do this in pymol is using the show_bumps plugin, but i
don't really like the "red d
