Hi Nick, We're glad you like ChimeraX! You can specify any color palette with "rainbow" (i.e. doesn't have to be a standard ROYGB palette). Example: rainbow /a palette darkblue:lightskyblue With the "rainbow" command "palette" option you can specify a named palette or define it with 2 or more colors. The simple example above uses 2 color names, but you can have more colors, and if they don't have names in ChimeraX, you can use hex codes, RGB, etc. as explained in the help. See <https://rbvi.ucsf.edu/chimerax/docs/user/commands/color.html#sequential> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/color.html#palette-options> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/colornames.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 Jun 1, 2025, at 7:32 PM, Nick Matzke via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Dear ChimeraX list,
Thanks so much for this amazing software!
I have a kind of obscure question for which I could not find an answer on Google.
I've got the FliPQR-FlhB structure, from here: https://www.rcsb.org/structure/6S3L
This has
5 copies FliP 1 copy FliR 4 copies FliQ 1 copy FlhB
I opened it and am using ribbon view.
I've colored the chains by protein type with these commands:
color /a,b,c,d,e purple color /f red color /g,h,i,j green color /k yellow
Now, I'd like to have each chain shaded from N-terminus to C-terminus, e.g. dark red to light red, or something like that. (I see the rainbow option, but this creates a very complex view if all 11 chains are each an roygbiv rainbow.)
Almost as good, is there a way to easily label the N-terminus and C-terminus of each chain?
Any suggestions!
Thanks so much, Cheers, Nick