AMBER Archive (2006)

Subject: Re: AMBER: software to visualize normal modes

From: David A. Case (
Date: Thu Jun 08 2006 - 12:46:38 CDT

On Thu, Jun 08, 2006, Ross Walker wrote:

> > Could someone tell me which software can we use to visualize
> > the normal modes generated by Nmode (amber8). Could VMD do that?

> 679013434&channel=2673479839&cof=FORID:1%3BGL:1%3BBGC:FFFFFF%3BT:%23000000%3
> BLC:%230000ff%3BVLC:%23663399%3BALC:%230000ff%3BGALT:%23008000%3BGFNT:%23000
> 0ff%3BGIMP:%230000ff%3BDIV:%23336699%3BLBGC:336699%3BAH:center%3B&domains=am
> t&cd=1&q=nmode+visualization&spell=1

Depending on your mail reader, the above may or may not be very helpful, and
in any event doesn't discriminate between helpful and unhelpful replies.

There is a link on the Amber web page ( to
"visualizing .... normal mode results". That points to how to do this in VMD,
and in my view is probably the simplest approach.


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