From: John Stone (
Date: Fri Mar 12 2004 - 12:46:47 CST

  Use the Mouse->Move->Rep mode, press and hold shift, and then click on
a representation set to the chain you want to rotate, and you should be
able to modify the atom coordinates (rather than just rotating the scene).
You can also use the atomselect 'move' subcommand to apply a transformation
to an atom selection. Once you've done all this, you can save out a new
coordinate file by selecting the molecule in the molecule browser of the main
VMD window, then use File->Save Coordinates to save a new coordinate or
trajectory file.

  John Stone

On Fri, Mar 12, 2004 at 04:59:09PM +0200, Ahmet Bakan wrote:
> Dear VMD Fellows,
> I have two binding chains. Using TkCon console I can rotate scene. What
> I want to do is altering coordinates of one of the two chains with
> respect to the other by rotation and then starting a simulation with
> this alignment. How can I perform this?
> Thanks in advance,
> Ahmet Bakan
> ==============ABC==============
> Ahmet Bakan
> Chemistry, Junior
> Koc University
> ICQ #86167698

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