VMD-L Mailing List
From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Sep 19 2012 - 12:09:56 CDT
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- In reply to: Esam Tolba: "Color code the structure by RMSF values"
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Hi,
If you assign the RMSF values to each of the atoms in the residues in
the "user" or "beta" fields, for example, you can simply color the structure
by the "user" or "beta" fields very easily. You don't even need to write the
RMSF values to files to be able to do that, you can simply assign them
to the per-atom data field as they are being computed.
Cheers,
John Stone
vmd_at_ks.uiuc.edu
On Wed, Sep 19, 2012 at 06:40:26PM +0200, Esam Tolba wrote:
> Hi
> I am performing molecular dynamics simulation on MHC protein. By analyzing
> the trajectories I calculated the RMSF of each residue. I got it as a txt
> file with the number of the residues in one column and the RMSF values in
> another column.
> NOW, I want to to color the protein structure in VMD using these RMSF
> values.
> Is there a way to do that???
> Esam
-- NIH Resource for Macromolecular Modeling and Bioinformatics Beckman Institute for Advanced Science and Technology University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801 http://www.ks.uiuc.edu/~johns/ Phone: 217-244-3349 http://www.ks.uiuc.edu/Research/vmd/ Fax: 217-244-6078
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