[Chimera-users] Constraining map-to-map fitting based on symmetry?

Oliver Clarke olibclarke at gmail.com
Fri Mar 20 07:54:13 PDT 2015


Thanks Tom, I will try this. I think locking the rotation axis for map fitting to the symmetry axis would be a useful feature for a future version, though I understand that it’s a bit of a niche use case.

Best,
Oliver.
> On Mar 19, 2015, at 3:23 PM, Tom Goddard <goddard at sonic.net> wrote:
> 
> Hi Oliver,
> 
>  No there no way to restrain symmetry axes using Chimera map fitting.  You can optimize rotations only preventing any translation, but full rotations will be allowed.
> 
>  You could use the Chimera “measure correlation” command with the rotationAxis and angleRange and plot options to measure the correlation value as one map is rotated relative to the other.  This doesn’t report the maximum correlation position but you could find the maximum in the tabulated values in the reply log.
> 
> 	http://www.cgl.ucsf.edu/chimera/current/docs/UsersGuide/midas/measure.html#correlation
> 
>  Tom
> 
> 
>> On Mar 19, 2015, at 9:44 AM, Oliver Clarke <olibclarke at gmail.com> wrote:
>> 
>> Hi,
>> 
>> If I have two maps of the same symmetry (say C4), and I align them using fit in map, is there any way to force chimera to keep the rotation axes of the two maps aligned, and to only search rotation around (and translation along) that axis, rather than arbitrary rotations?
>> 
>> Cheers,
>> Oliver.
>> 
>> 
>> 
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> 




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