Re: convert pdb format to normal pdb format

From: flavio seixas (
Date: Wed Aug 24 2011 - 18:05:18 CDT


I do not know how to do it with namd or vmd, however, alternatively you may open the output pdb file with Chimera software ( ) and just save it as pdb. Chimera defaults will change ATOM records from any ligands to HETATM, as well change the atom names based on a default PDB topology dictionary.

I hope it helps.


--- On Wed, 8/24/11, hamze rahimi <> wrote:

From: hamze rahimi <>
Subject: namd-l: convert pdb format to normal pdb format
To: "vmd-l" <>,
Date: Wednesday, August 24, 2011, 10:48 AM

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