VMD-L Mailing List
From: Axel Kohlmeyer (akohlmey_at_cmm.chem.upenn.edu)
Date: Fri Apr 04 2008 - 11:52:27 CDT
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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>
-- ======================================================================= Axel Kohlmeyer akohlmey_at_cmm.chem.upenn.edu http://www.cmm.upenn.edu Center for Molecular Modeling -- University of Pennsylvania Department of Chemistry, 231 S.34th Street, Philadelphia, PA 19104-6323 tel: 1-215-898-1582, fax: 1-215-573-6233, office-tel: 1-215-898-5425 ======================================================================= If you make something idiot-proof, the universe creates a better idiot.
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