Hi, Elaine
It was very useful and solved my problem very well. Thank you!
Best regards,
Nan
张楠
zhangnan@nankai.edu.cn
---- Replied Message ----
From Elaine Meng Date 3/13/2024 23:14 To 张楠 Cc "chimerax-users@cgl.ucsf…" Subject Re: [chimerax-users] only make selection highlighted
Hi Nan,
In the pictures it looks like part of the structure is transparent. So I think when you say "blur" you mean transparent. You can control that with the "transparency" command. You could make part of the cartoon transparent, or you could make the whole cartoon transparent and only the stick part not transparent. Example 1, show only sticks near the ligand and make the whole cartoon 75% transparent ("target c" means the cartoons only) but leave the sticks not transparent:
open 2gbp
hide atoms
show ligand :<5
transparency 75 target c
Example 2, make most of the cartoon transparent, except make cartoon of residues 10-55 in chain A not transparent. Of course you can use a different value than 75%.
open 121p
transparency 75 target c
transparency /A:10-55 0 targ c
If you don't include "target c" the default is to work on surfaces only, so nothing would happen in this case. You can use "target a" (atoms), "target ac" (atoms + cartoons), etc. as explained in the help:
https://rbvi.ucsf.edu/chimerax/docs/user/commands/transparency.html
I hope this helps,
Elaine
-----
Elaine C. Meng, Ph.D.
UCSF Chimera(X) team
Resource for Biocomputing, Visualization, and Informatics
Department of Pharmaceutical Chemistry
University of California, San Francisco
On Mar 12, 2024, at 11:29 PM, 张楠 via ChimeraX-users wrote:
Dear developers,
How does chimerax make the stick I selected highlighted and the carton in other areas blurred? I tried to click on view selected, but that only makes the back of the structure blur, not the front. May I ask how to operate to achieve the effect in the picture, only highlight stick？
Looking forward to your answer, thank you！
Best regards,
Nan
http://B6325FD4-855F-4617-A01B-1B3040BF19E4.png
张楠
zhangnan@nankai.edu.cn
