Hi Bala, If these were atom-associated values, you could make your own custom attribute and then easily color or scale the atoms by the values. However, these are values associated with distance measurements, and we don't have a similarly nice mechanism for assigning attributes to bonds or pseudobonds. Another point is that all pseudobonds in a group (such as all distance monitors) have the same linewidth. Instead of different linewidths, you could show them with different colors and/or as sticks of different widths. With Chimera commands, you can create a distance monitor and set its stick thickness, color, etc.: open 1zik alias pair1 #0:22.a@oe2:25@ne dist pair1 setattr p drawMode 1 pair1 setattr p radius .05 pair1 setattr p color hot pink pair1 setattr p label " " pair1 However, it sounds like python will be necessary to conditionally set radius or color depending on the value of the distance. Another possibility instead of making distance monitors is to make custom pseudobonds with the Pseudobond Reader tool, which reads a file with lines like: #0:22.a@oe2:25@ne hot pink <http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/pbreader/pbreader.h...
but that does not get you any farther than the distance monitor approach, as you would still need to conditionally set color (which can be done in the input file) or radius (with "setattr" as above) depending on the distance. 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 May 5, 2010, at 7:29 AM, Bala subramanian wrote:
Dear Friends, Is there any way to display weighted distance in chimera. For example, in the attached data file, we have distance in column 1 and its corresponding importance in column 2. What i would like to do is to load the structure, display the distance between two group of residues and adjust the width of the line (created by distance monitor) according to the importance of the distance in the data file.
Thank you, Baa
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