From: Axel Kohlmeyer (akohlmey_at_cmm.chem.upenn.edu)
Date: Fri Apr 04 2008 - 11:52:27 CDT

On Fri, 4 Apr 2008, Alejandro Ortega wrote:

AJ> Hi,

alejandro,

AJ>
AJ> I am new at VMD and NAMD. I know that to make a movie, I need to run with
AJ> namd the config file, which is going to call the PDB, PSF and my INP or
AJ> PARAMS files.
AJ>
AJ> But my question is, how do I get the topology file from my protein? I have
AJ> tried with paratool but it is not working. How can I build it starting from
AJ> my PDB file?

there are plenty of tutorials on the webserver hosting VMD and NAMD
demonstrating exactly what you are asking for. see:
http://www.ks.uiuc.edu/Training/Tutorials/

cheers,
   axel.

AJ>
AJ>
AJ>
AJ>
AJ> Alejandro Ortega
AJ> University of Texas at El Paso
AJ>

-- 
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Axel Kohlmeyer   akohlmey_at_cmm.chem.upenn.edu   http://www.cmm.upenn.edu
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