[Chimera-users] Crystallographic Map Expansion

Elaine Meng meng at cgl.ucsf.edu
Fri Jul 24 11:44:50 PDT 2020

Hi Jessica,
As I understand it, Coot may automatically use symmetry to display the map so that it covers the atomic structure.

In Chimera, the map isn't automatically extended or translated to cover the atoms, but you can do so using the "vop cover" command:


I hope this helps,
Elaine C. Meng, Ph.D.                       
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco

> On Jul 24, 2020, at 9:12 AM, Jessica Bruhn <jbruhn at nanoimagingservices.com> wrote:
> Hi,
> I am trying to open a map generated by microED. I generated a SigmaA map in coot based on an fcf file generated by SHELXL (see attached). I can open it in Chimera and things look reasonable. I am wondering if it is possible to expand the density map beyond the boundaries of the available box using the crystallographic symmetry? Additionally, I am a bit confused by the size of the box. I would have expected it to have the dimensions of the unit cell or the asymmetric unit, but it does not appear to be either of those. The map does appear to be scaled properly. 
> Any help would be greatly appreciated.
> Thanks,
> Jessica

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