VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Wed Nov 15 2006 - 18:07:44 CST

Hi,
  Presumably that paper cited VMD for its use in preparing figures
or something like that (I don't have a copy and google scholar didn't
manage to find it for me). I think that you probably want to do this
with SMD in NAMD somehow (VMD is just display/analysis, NAMD is the
simulation engine.)

  John Stone
  vmd_at_ks.uiuc.edu

On Tue, Nov 14, 2006 at 02:51:13PM -0600, Jennifer A Carvajal wrote:
> I have built a crystal system of nanotubes and I want apply a compressive force to estimate elastic properties of the system. I was using SMD to apply the forces but I don?t want to fix atoms.
> Is there any way to apply this kind of forces in VMD without fixing atoms?
>
> There is a paper citing VMD related:
>
> Tuszynski, J.A., Luchko, T., Portet, S., Dixon, J.M.
> Anisotropic elastic properties of microtubules
> EUROPEAN PHYSICAL JOURNAL E, 17:29-35, MAY 2005
> www.ks.uiuc.edu/Research/vmd/allversions/citations/abstracts/ISI:000232026300004.html
>
> Thanks in advance for your suggestions,
>
> Andrea
>
>
>
> 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
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