Hi Yanhe, I guess you mean you have no atomic structure fitted inside, only the map? Zones are defined using atomic coordinates. However, without any atoms, you can interactively (manually by moving a sphere with the mouse or trackpad) delete parts of the map using the Volume Eraser tool, see: <https://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/voleraser/voleraser.html> It is in the menu, Tools... Volume Data... Volume Eraser. Another possible approach is to try segmenting the map, e.g. menu: Tools... Volume Data... Segger. <https://www.rbvi.ucsf.edu/chimera/docs/ContributedSoftware/segger/segment.html> This has many features and controls to group/ungroup segmentation regions, etc., but if you can get the bilayer segmented separately from the protein density, then you can select (Ctrl-click) and hide the regions you don't want to see (Segger menu: Regions... Hide) I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On May 17, 2021, at 1:00 PM, Yanhe Zhao <yanhezhao1990@gmail.com> wrote:
To whom may concern,
This is Yanhe Zhao, from UT Southwestern Medical Center.
I was curious that how can I exclude the lipid bilayer to show the transmembrane protein electron density when "zone" could not be used as I have no sequence and pdb information. Thanks a lot in advance for any input.
Best regards, Yanhe