AMBER: how to use prep file

From: Fang, Jianwen <jwfang.ku.edu>
Date: Mon, 23 Feb 2004 13:15:19 -0600

        Dear all,
        I have a naive question. How should I use prep and frcmod files which I download from amber parameter database, to generate prmtop and prmcrd files for a cofactor I have pdb file. Do I need to modify atom types in my pdb file? Also how to construct a larger system which has this cofactor?
        Thanks!
        JF
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Received on Mon Feb 23 2004 - 19:53:00 PST
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