From: Ke, Jiyuan
Date: 26 October 2011 15:15
Dear All,
I have a question regarding making disulfide bonds in Pymol. The overall structure is in cartoon representation. When I display the disulfide bond residues as stick models, the cysteine residues sitting on the beta strand have a gap from the actual beta-strand. If I check off the flat sheet option, all the beta-strands look very wavy, but the cysteines are actually on the beta strands. I want to just change the two beta-strands with cysteine residues on it as wavy strands and keep other beta-strands flat looking. Does anyone know a way to do this or has better ways to draw individual residues on beta-strands. Thanks!
jiyuan
Jiyuan Ke, Ph.D.
Research Scientist
Van Andel Research Institute
333 Bostwick Ave NE
Grand Rapids, MI 49503
From: Ed Pozharski
On Wed, 2011-10-26 at 10:15 -0400, Ke, Jiyuan wrote:
> flat sheet option
IIUC, the set command in pymol allows per-selection application, i.e. if
you try this in the command line instead of checking the option in the
menu
set cartoon_flat_sheets, 0, blah
where blah is your selection.
--
Oh, suddenly throwing a giraffe into a volcano to make water is crazy?
Julian, King of Lemurs
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From: Christian Roth
Hi,
I think it should also work with the cartoon side chain helper option which
adjust the cartoon slightly to prevent such situations.
Christian
Am Mittwoch 26 Oktober 2011 16:15:55 schrieb Ke, Jiyuan:
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