biotin parameters and topology

From: Brian R Novak (
Date: Tue Apr 28 2009 - 12:37:53 CDT

Dear NAMD users:

I need the CHARMM parameters and topology for biotin to simulate biotin carboxylase with bound biotin.

This paper says they can be found at, but this does not seem to exist anymore.

Molecular dynamics study of unbinding of the avidin-biotin complex
Author(s): Izrailev S, Stepaniants S, Balsera M, Oono Y, Schulten K
Source: BIOPHYSICAL JOURNAL Volume: 72 Issue: 4 Pages: 1568-1581 Published: APR 1997

Does anyone know if I can download these anywhere? Perhaps they should be put on NamdWiki.


I found a conversation where you sent someone these files ( There was an attached topology file. Is this the topology used in the above paper, and are all of the parameters in the CHARMM topology files or do I need a parameter file as well?

Thanks for any help,

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