Hi Jinghua, I don't know any way to make the smooth ribbon "broken." You can draw a straight line between any pair of atoms (with Pseudobond Reader or by creating a distance measurement) and control how that line is drawn (solid, dashed, etc.), but if you wanted a curved dashed line, you would have to add that with some other program like Photoshop after saving the image. You might try making the ribbon for one of the conformations transparent, as shown in the image here: <http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/morph/morph.html
Example command: color 0.8,0,0.4,0.4,r #0:20-48.b where the color is defined with red,green,blue,opacity numbers and the ",r" means ribbons only for residues 20-48 in chain B of model 0. I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco On Dec 15, 2009, at 7:38 PM, jinghua@ucsd.edu wrote:
To differentiate two conformations of a small loop, does anyone know how to draw one of the loop (a smooth C alpha trace) as broken line?
Thank you for your kind help!
Jinghua
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