<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;">Hi Kyle,<div>Unfortunately once it’s made, it’s made. Instead you have to get the coloring you want on the original model, and then recreate the pipes (& planks). Each whole pipe would be the same color, though, taken from the ribbon color of the first residue in that helix; it is not divided into independently colorable per-residue segments. The new pipes model should overwrite the existing pipes model, but f you seem to be getting duplicate models, extras can be closed using the Model Panel (under Favorites in the menu). </div><div><br></div><div>You could try to “highlight” a position by also displaying the atomic structure CA atom of that residue as a ball or sphere, but I don’t know how well that would meet your needs, sorry.</div><div><br></div><div>In our next-gen program ChimeraX, not yet publicly available but will be soon (as early development, not a finished product), </div><div><<a href="http://www.rbvi.ucsf.edu/chimerax/">http://www.rbvi.ucsf.edu/chimerax/</a>></div><div>...there are helix “tubes” (like cylinders but curved) that are better integrated with the atomic model and cartoon ribbons, and can be recolored even in per-residue segments after they are shown. Example image with leucine segments in red attached below.</div><div><br></div><div>I hope this helps,</div><div>Elaine<br><div>-----<br>Elaine C. Meng, Ph.D. <br>UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab<br>Department of Pharmaceutical Chemistry<br>University of California, San Francisco<br><br><img height="217" width="210" apple-width="yes" apple-height="yes" apple-inline="yes" id="AF11AC4B-90F3-44E5-8966-5C73E9563E43" src="cid:C4739FA2-7DDF-49C7-AA70-98490E10895F@gateway.sonic.net"></div><br>On Dec 2, 2016, at 3:40 PM, Kyle Morris <<a href="mailto:kylelmorris@berkeley.edu">kylelmorris@berkeley.edu</a>> wrote:<br><br><blockquote type="cite">Dear Chimera dev,<br>I am using the pipes representation. In this case is it still possible to color/highlight a segment by residue number? Using the normal commands when displaying pipes doesn’t update the color, only on the original model.<br>Thanks for your help!<br>Best wishes,<br>Kyle<br>scription: <a href="http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users">http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users</a><br><br></blockquote><br></div></body></html>