AMBER Archive (2008)

Subject: AMBER: MD of protein-ligand comlex

From: umbrita itl (umbrita_at_yahoo.com)
Date: Sun Jan 06 2008 - 14:54:47 CST

Hello amber users,

I have few questions. I am trying to get Molecular Dynamic receptor-ligand complex. I have never done MD on protein-ligand complex before.
 I am studying Streptavidin/Biotin Tutorial and I am confused about how to do it.
 Should I create a " frcmod " file for my system?
 I do not understand why biotin file is prepared in leap . I thought, for preparation of ligand we need use Antechamber.

Can someone please help?

Thank you very much for any sugestions.

Anna

       
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