[Chimera-users] Helical Parameter estimate using Chimera

Elaine Meng meng at cgl.ucsf.edu
Mon Apr 15 09:49:35 PDT 2019

It would only work on 3D volume data that isn’t too noisy since it relies on self-correlation upon rotation/translation.

> On Apr 15, 2019, at 9:45 AM, Elaine Meng <meng at cgl.ucsf.edu> wrote:
> Hi Reja,
> There is a “measure symmetry” command but it is somewhat limited.  
> "Check each specified volume data set (map) for cyclic, dihedral, tetrahedral, octahedral, and icosahedral symmetries in standard coordinate systems. Helical symmetry can be considered if approximate parameters are supplied.”
> For command syntax and further details:
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/measure.html#symmetry>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>> On Apr 14, 2019, at 5:16 PM, Rejaul Hoq Nayem <nayem1chem at gmail.com> wrote:
>> Hi All, 
>> I want to estimate Helical parameter ( Helical Rise, Twist, asymmetric sub unit, per turn  ) of Tau filament for Reference Module generation using Chimera. Is it possible to estimate from raw micrographs or 2D Class Average  by Chimera? 
>> I was wondering if any of you can provide me procedure if any, will be a great help. Eagerly waiting for your reply.
>> Thanks in Advance, 
>> Reja  
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