Re: AMBER: software to visualize normal modes

From: David A. Case <>
Date: Thu, 8 Jun 2006 10:46:38 -0700

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.


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Received on Sun Jun 11 2006 - 06:07:13 PDT
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