CCL: Energy minimization protocol for protein structures?

 Sent to CCL by: "Nuno R. L. Ferreira" [nunolf(_)ci.uc.pt]
 Hi
 Gromacs and NAMD are two free software packs you can use to perform
 molecular dynamics simulations, but there are others.
 In both these packs you must write a script with the parameters to perform
 your task. But, there's always tutorials with self-explanatory examples.
 There's also SwissPDB Viewer, which has a GUI. To start with, this could be
 a good choice.
 The choice would rely on your background about the subject and the final
 goal.
 Best regards,
 Nuno
 ----- Original Message -----
 > From: "Gerard Pujadas gerard.pujadas-.-urv.cat"
 <owner-chemistry+/-ccl.net>
 To: "Ferreira, Nuno R. L. " <nunolf+/-ci.uc.pt>
 Sent: Monday, May 08, 2006 2:09 PM
 Subject: CCL: Energy minimization protocol for protein structures?
 > Sent to CCL by: "Gerard  Pujadas" [gerard.pujadas,,urv.cat]
 >
 > Dear CCL list subscribers,
 >
 > I wonder if there is any standard protocol to follow when doing an energy
 minimization of a protein structure.
 >
 > I would like to know also if there is a free (or low cost for non
 commercial or academic) and easy-to-use software that can do this kind of
 energy minimization
 >
 > With many thanks in advances.
 >
 > Yours sincerely,
 >
 > Gerard>
 >
 >
 >
 >
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