[MMTK] Fwd: CCL:NMA for proteins: http://www.bioinfo.no/tools/normalmodes

hinsen at cnrs-orleans.fr hinsen at cnrs-orleans.fr
Tue Sep 7 17:41:30 CEST 2004


A nice MMTK application!

Konrad.

Begin forwarded message:

> From: Nathalie Reuter <nathalie at ii.uib.no>
> Date: August 24, 2004 18:23:27 CEST
> To: chemistry at ccl.net
> Subject: CCL:NMA for proteins: http://www.bioinfo.no/tools/normalmodes
>
> We are pleased to announce the release of a new version of our web  
> server for normal analysis of proteins, WEBnm@, available at  
> http://www.bioinfo.no/tools/normalmodes. Go and try it !
>
> The server is meant to provide users with simple and automated  
> computation and analysis of low-frequency normal modes for proteins.  
> The computation performed through our server should help the user  
> understand whether your protein of interest undergoes large amplitude  
> movements, and thus decide if it is worthwile performing a complete  
> study with more thorough analysis. Analysis tools provided here have  
> been described and successfully applied /(Reuter et al., Biophys.J.,  
> 2003)/. Normal modes calculations are performed using the MMTK package  
> /(K. Hinsen, J.Comput.Chem., 2000)/.
> Analysis tools available so far are:
> * deformation energies for low-frequency modes;
> * calculation of normalized squared atomic displacements: results are  
> provided either as raw data or as plots (PDF format);
> * vector field representation: PNG image files or VMD state files;
> * animations of the vibrations associated with the low-frequency  
> modes: animated gif or dcd trajectory files.
>
>
> We welcome comments and suggestions, and will surely take them into  
> account in future versions.
>
> --  
> Nathalie Reuter
> Computational Biology Unit
> BCCS/Univ. of Bergen
> Thormohlensgt, 55
> N-5008 Bergen
> Phone: +47 55 58 40 40
> Fax: +47 55 58 42 95
>
>
>
>
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