VMD-L Mailing List

From: L. Michel Espinoza-Fonseca (mef_at_ddt.biochem.umn.edu)
Date: Mon Jun 05 2006 - 10:52:23 CDT

Hi Alex,

I think that you can use the RMSDTT plugin for VMD, written by Luis Gracia.

http://physiology.med.cornell.edu/faculty/hweinstein/vmdplugins/rmsdtt/

Hope it helps,
Michel

2006/6/4, Alexe Bojovschi <abojovschi_at_it.swin.edu.au>:
> Hi All,
>
> Can you please let me know how can I align small molecules using VMD?
> I did some alignments of proteins, but I can't figure out how to align
> small molecules as Adenosine.
>
> Thank You!
> Alex
> Small molecules alignment with VMD
>
> >******************************************************************
> >* Alexe Bojovschi - PhD student
> >* Centre for Molecular Simulation
> >* Swinburne University of Technology
> >* P.O. Box 218 Hawthorn
> >* Victoria 3122 Australia
> >* Tel: +61 3 9214 4892
> >* Fax: +61 3 9214 5075
> >* http://www.it.swin.edu.au/centres/cms/
> >* www.geneyas.com
> >* Beauty in things lies in the mind which contemplates them.
> >******************************************************************
>