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_2...@yahoo.com
> Subject: Re: [PyMOL] get translation / rotation matrix from "super"
> To: matze_haf...@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
>
>
>
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