AMBER Archive (2004)

Subject: Re: AMBER: Amber force field for protein-DNA system

From: David A. Case (
Date: Tue Jun 01 2004 - 13:40:15 CDT

On Tue, Jun 01, 2004, wrote:
> I am new to the Amber force field. I am wondering which parameter file I
> should use for a protein-DNA system? I saw parameters for protein and
> nucleic acid seperately. But is there a parameter file for both?

I'll pitch in yet another reply to those already made:

The "leaprc" files (such as leaprc.ff94 or leaprc.ff03) automatically load
both protein and nucleic acid force fields. Take a look at these files and
you can see what is going on.

...good luck...dac

The AMBER Mail Reflector
To post, send mail to
To unsubscribe, send "unsubscribe amber" to