Thanks for your help Jason and David!

I'll have a look at your suggestions, although I solved my problem in a different way. I just copied the coordinates of the important symmetry mates into the pdb file containing the original molecule of protein B (and set up a new chain for each of the sym mates). Superimposing protein B (the chain containing the original molecule) on protein A moves all desired sym mates according to the movement of the original molecule.
Anyway, getting the translation / rotation matrix is much more convenient than copying all the coordinates... :-)

Thanks once again!

Matthias

> Date: Tue, 19 Jan 2010 07:02:44 -0800
> From: dwash59_2000@yahoo.com
> Subject: Re: [PyMOL] get translation / rotation matrix from "super"
> To: matze_haffke@hotmail.com; pymol-users@lists.sourceforge.net
>
> Matthias Haffke said:
> > Is there a way to "extract" the translation / rotation matrix out of the super command or can I use another command to align both,
> > protein B and A and to apply the function on every symmetry mate?
>
> In addition the commands mentioned by Jason, you can look at matrix_copy
> http://www.pymolwiki.org/index.php/Matrix_copy
>
> You would align protein B to A, then matrix_copy protein_b, symmetry_mates
>
> Note, the second argument can have a wild card, so you only need to call the command once to move all of them if they all have a common prefix or the such.
>
> -David
>
>
>


Dein Santa Claus hat rote Augen? Jetzt X-Mas-Fotos bearbeiten!