[gmx-users] Visualizing the simulation in VMD

Justin A. Lemkul jalemkul at vt.edu
Fri Jan 21 04:44:42 CET 2011

bharat gupta wrote:
> I loaded the .gro file generated after pdb2gmx command in vmd and then I 
> loaded the .trr file into that molecule but it shows frame 1 vol 0 in 
> VMD and when I click the play button on the toolbar the frames doesn't 
> move ... can anybody tell me how to play the simula tion in VMD ?? or 
> where am i going wrong

How many frames did you save in the .trr file?  Use gmxcheck.  If it has 
multiple frames, it will load them all and you can watch the movie.  Sounds like 
you haven't saved enough frames.


> -- 
> Bharat
> Ph.D. Candidate
> Room No. : 7202A, 2nd Floor
> Biomolecular Engineering Laboratory
> Division of Chemical Engineering and Polymer Science
> Pusan National University
> Busan -609735
> South Korea
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Justin A. Lemkul
Ph.D. Candidate
ICTAS Doctoral Scholar
Department of Biochemistry
Virginia Tech
Blacksburg, VA
jalemkul[at]vt.edu | (540) 231-9080


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