[Chimera-users] Move molecule to center of rotation?

Tom Goddard goddard at sonic.net
Wed Oct 28 11:01:01 PDT 2015

Hi Oliver,

  I’m not convinced that this will help fitting molecules in maps because once you get the molecule roughly in the right place, you still need to orient it to get it to fit.  So you still have the same problem that you somehow have to move only that model.  I typically do this with keyboard shortcut “ao” (activate only) which makes only the selected model movable.  I then put it where I want with the mouse and use shortcut “at” (activate toggle) or “aa” (activate all) which returns to all models moving.  Using “at” is particularly good because then hitting “at” again returns to just that same one model being movable (even if the selection has changed). Another approach is to use the “Movement Mouse Mode” tool (menu Tools / Movement) in “Move molecule” mode, then when you click and drag on any molecule it moves just that molecule.

  At one time I had a keyboard shortcut that moved a selected model to the center of view that I used in cases where a model started out extremely far away.  But that is not in Chimera — I found it so rarely useful.


> On Oct 28, 2015, at 6:53 AM, Oliver Clarke wrote:
> Hi all,
> Feature suggestion - it would be very useful if there was a way to automatically move a specific molecule to the current center of rotation (relative to all other models). I can do this manually by deactivating all other  models for motion and moving using the “move” command or the mouse, but it seems like this could be made much quicker by automatically applying the translations necessary to bring a given molecule to the current center of rotation.  I can probably do this using a python script but I think it is also a generally useful feature, particularly when fitting multiple protein components to a density map, or bringing in a ligand, etc.
> Cheers,
> Oliver.
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