VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Thu Apr 27 2006 - 11:12:29 CDT

Also, if you just want to view the secondary structure at each timestep,
you can use the "sscache" script in the VMD script library...

  John Stone
  vmd_at_ks.uiuc.edu

On Thu, Apr 27, 2006 at 05:30:29PM +0200, L. Michel Espinoza-Fonseca wrote:
> Hi Arneh,
>
> You can try the "timeline"plugin of VMD. It invokes STRIDE to
> calculate the secondary structure.
>
> Enjoy!
> Michel
>
> 2006/4/27, Arneh Babakhani <ababakha_at_mccammon.ucsd.edu>:
> > Hello,
> >
> > I think there's a way to calculate the secondary structure of a protein
> > (or the residues of a protein) along a trajectory, right? If so, how do
> > I do that in VMD? Do I need to download/install a separate script?
> >
> > Thanks,
> >
> > Arneh
> > 

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NIH Resource for Macromolecular Modeling and Bioinformatics
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