Hi Hong,

  If you get tomorrow's (Tuesday Oct 18, 2022) ChimeraX daily build (not the 1.5 release candidate) it will make the surface colors match your cartoon colors.

  ChimeraX was coloring the molecular surface of chains using a fixed set of colors instead of trying to match the color you set for the atoms of your structure.  That seems not so great.  So I changed it today so that new molecular surfaces have their color match the ribbon/cartoon color of the residues for that surface.  (If the residues have multiple colors then the average is used).

  Also I added an option to the ChimeraX color command to make the surface colors match the ribbon/cartoon colors.  For example

color #1 fromcartoons

With this command if the residues have different ribbon / cartoon colors then the surface will also have multiple colors matching the residues.

  Thanks for pointing out the difficulty in getting the surface colors to match the structure colors.

Tom

On Oct 14, 2022, at 6:43 PM, HONG ZHAN via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:

Dear all,

I would like to generate surface using my model but I want to keep the color as I defined. My protein contains only one chain so that when I ran Surface command, it generated surface with one color... Is there a way to generate surface to keep my defined color?

Super thanks!
Hong
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