[Chimera-users] is there a way to draw a small loop as broken line?

[Elaine Meng]

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 at 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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