Different colors for individual chains within a model
Dear Chimera group,
Simple question from a new user--How do I distinctly color ribbon representations of different chains within the same model?
Thanks,
Saul J. Karpen, M.D., Ph.D. Baylor College of Medicine
Hi Saul,
The simplest method is to use the Chimera command "rainbow chain". It gives each chain a different color progressing from red to blue. Use menu entry Favorites / Command to display the Chimera command line at the bottom of the main Chimera window, then type in "rainbow chain".
If you want other color schemes you would select each chain and then color it. For example you could use menu entry Select / Chain / A, then menu entry Actions / Color / Orange. Another convenient way to select the chain you want is to click with ctrl-left-mouse button on a single atom in the chain to select that atom. Then press the up-arrow key on your keyboard once to select the containing residue, then a second time to get the containing chain. Then use the Actions / Color menu. One last hint. It can be painful to keep going to the Actions / Color menu. You can "tear-off" this menu to make it a separate window using menu entry Actions / Color / - - - - -. The "- - - - -" is the topmost menu entry.
Tom
Hi Saul, You can use whatever colors you like with the rainbow command, see:
http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/rainbow.html
(all of the built-in color names are shown under Actions... Color... all colors)
There is also a Rainbow graphical interface; it too allows the coloring scheme to be changed. Open that tool (Tools... Depiction... Rainbow), set it to "chain." Clicking on a square color well opens the Color Editor, in which a color can be chosen interactively. Man page for the Rainbow GUI:
http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/rainbow/ rainbow.html
Enjoy! Elaine ----- Elaine C. Meng, Ph.D. meng@cgl.ucsf.edu UCSF Computer Graphics Lab and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco http://www.cgl.ucsf.edu/home/meng/index.html On Mar 31, 2006, at 3:01 PM, Karpen, Saul J. wrote:
Dear Chimera group,
Simple question from a new user--How do I distinctly color ribbon representations of different chains within the same model?
Thanks,
Saul J. Karpen, M.D., Ph.D. Baylor College of Medicine _______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users
participants (3)
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Elaine Meng -
Karpen, Saul J. -
Thomas Goddard