convert_from_namd_to_amber

From: Wei Chen (gtg553p_at_mail.gatech.edu)
Date: Tue Jun 28 2005 - 22:02:18 CDT

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Hi, all,

I used namd to produce a molecular trajectory. And then I can output the
trajectory file in namd format to amber format using VMD. On the other
hand, I need make amber topology file .prmtop with pdb file in namd format.
However, some atom names and residue names can not be recognized by LEap.
Another problem is whether the atom order will fit between trajectory and
.prmtop file.

Does anyone have ideas?
Thanks!

Wei Chen

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