VMD-L Mailing List

From: Ekta Khurana (ekta_at_athanor.cmm.upenn.edu)
Date: Mon May 09 2005 - 18:34:48 CDT

     Thanks for the reply.I am doing this but I want the points for all
the residues in one plot. I can get this for one individual frame but not all.
Ekta

On Mon, 9 May 2005, Michel Espinoza-Fonseca wrote:

> According to what I know, after reading your trajectory file, you can
> automatically get the Ramachandran plot for the entire simulation. The
> only thing you need to do is to open both topology and trajectory files,
> go to Extensions-->Analysis-->Ramachandran plot. Then you pick the
> residue you're interested in and you'll get a bunch of points, each one
> representing the phi/psi angles.
>
> Peace,
> Michel
>
> -----Original Message-----
> From: owner-vmd-l_at_ks.uiuc.edu [mailto:owner-vmd-l_at_ks.uiuc.edu] On Behalf
> Of Ekta Khurana
> Sent: Monday, May 09, 2005 6:08 PM
> To: vmd-l_at_ks.uiuc.edu
> Subject: vmd-l: Rama plot
>
>
> Hi, Is there a way I can plot the phis and psis of the residues for
> all
> the frames instead of moving frame by frame using Rama plot in the pull
> down menu to get a complete picture of which areas of the Ramachandran
> plot are most densely populated.
> Thanks,
> Ekta
> --
>
>
>
> 

-- 
Ekta Khurana
Center for Molecular Modeling
University of Pennsylvania
ekta_at_cmm.upenn.edu
Phone: (215) 573-8697
Fax: (215) 573-6233