Hi Anna, First make a transparent color, and then use it to color the ribbon. There are a few approaches. (A) Menu way. Transparent colors can be created interactively in the Color Editor (under Tools... Utilities) http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/colortool.html and then Actions... Color... from editor uses that color. You can set the target to ribbons only if you want (Actions... Color... ribbons). (B) Command way. Transparent colors can be created with the command "colordef" http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/colordef.html for example, colordef transred 1 0 0 .3 colordef transblue 0 0 1 .3 and then used with the command "color" http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/colordef.html for example, color transred,r :1-10.a color transblue,r :1-10.b (you could go back and adjust the colors with colordef at this point as needed, and the items will adjust their colors without another "color" statement) The color command can also use the Color Editor color (that color can be indicated with the name "fromeditor" or "colorpanel"). This process differs from making a surface transparent for technical reasons - in a nutshell, a surface patch has a transparency property that is separate from its color, while a ribbon segment does not. I hope this helps, 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 Dec 12, 2006, at 7:18 AM, Anna Feldman-Salit wrote:

Dear All,

From some reason I cannot find the option of making ribbon representation transparent. Can you please give me a hint?

Thanks a lot in advance,

Anna _______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users