Hi Elaine, Sorry for my delay as I was trying the ways you described above. Thanks a lot for that. I have another question as below: How can I have color gradient along the map dimensions? For example along X. Thanks and best, Yanhe Elaine Meng <meng@cgl.ucsf.edu> 于2021年5月17日周一 下午3:14写道：
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/voleras...
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.ht...
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