[Chimera-users] Distance Lines

Elaine Meng meng at cgl.ucsf.edu
Thu Jul 31 09:05:53 PDT 2008

Hi Hernando,
Sure, there are a couple of ways you could do it:

(A) If you wanted to create several lines at once, optionally  
specifying individual colors and labels, you would use "PseudoBond  
Reader" (under Tools... Depiction).
First you would create a simple text file specifying the pairs of  
atoms to connect, colors, etc. (format described in the above man  
page) and simply read it in with that tool.

(B) If you only want a few lines, just create distance monitors.  Then  
open the Distances tool (under Tools... Structure Analysis)
and in that tool, set Labels to "None."  Click the "Display  
options..." button to open another panel that lets you change to solid  
lines.   You can also change the color of all the monitors  
collectively that way.  If you instead wanted to control the display  
individually, Ctrl-click on the pseudobond (the distance monitor) to  
select it, then open the Selection Inspector (one way is by clicking  
the button near the lower right corner of the Chimera window) and  
change its properties there.

I hope this helps,
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Jul 31, 2008, at 7:56 AM, hsosa at aecom.yu.edu wrote:

> Hi ,
>   I want to make a solid line (with chosen color) between two atoms.
> Kind of like the line that appears when measuring distances between
> atoms, but  without the distance legend. Is there an easy way to do  
> that ?
> Thanks
> Hernando

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