Hi Tom, Great, that worked nicely, thank you! Ben On 26/01/2011 02:36, Tom Goddard wrote:

Hi Ben,

The "independent" center of rotation mode is not able to do what you want without great difficulty. It can only rotate each model about its own geometric center with no provision to specify the center (it is calculated).

But it is not too hard to get what you want. You use the "turn" command once for each pdb/map pair. Suppose the first PDB is model #0 and its map is model #1. Use the following command

turn z 3 120 center #1 models #0,1 coord #1

to rotate both about the z axis of the map coordinate system in 3 degree steps for 120 steps about the geometric center of the map. If the next PDB/map pair is #2,#3 use the analogous command to rotate those. When you put those two commands in a script to record a movie the first command completes immediately (it doesn't wait for the 120 frames) and so the second rotation will start at the same time (actually one frame later, but that shouldn't be observable at 25 frames/sec). Put the commands on the same line separated by a semi-colon if you want them to strictly start exactly in sync (no 1 frame error).

Turn command documentation:

http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/turn.html

Tom

...

Hi,

I have a set of density maps and PDB models. I have displayed the maps side by side. Each map has a pdb model docked in it. I would like to make a movie where each map rotates around its Z axis. Each pdb should rotate around the Z axis of its respective map. I tried: set independent roll z

The problem is that the center of the pdb models is not the same as the center of their respective maps. Is there a way to group one pdb with one map so that they rotate around the same center? Or is it possible to set the center of rotation of a PDB to the same value as the center of rotation of the map?

Thanks in advance Ben

-- Benoît Zuber MRC Laboratory of Molecular Biology Hills Road Cambridge CB2 0QH United Kingdom +44 1223 402209 bzuber@mrc-lmb.cam.ac.uk