<html><head><meta http-equiv="Content-Type" content="text/html charset=windows-1252"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;">Hi Oliver,<div><br></div><div> I added a “rainbow helix” command to Chimera, in tonight’s daily build. Unfortunately it doesn’t look much different then simply using rainbow when applied to a transmembrane protein. The two image below show "rainbow helix” and “rainbow” on 2rh1.</div><div><br></div><div><img height="403" width="224" apple-width="yes" apple-height="yes" apple-inline="yes" id="3A2D4EF2-EB0B-4E45-975E-BC64243A3F13" src="cid:31872773-3704-4812-A64F-5D108F00E792"> <img height="403" width="224" apple-width="yes" apple-height="yes" apple-inline="yes" id="B0ED425B-6860-4A67-9F61-FC0B0D769284" src="cid:F360384F-1841-4411-99B5-D3FBBCFAD39F"></div><div><br></div><div>They are different since the rainbow helix command does not color the turns and beta strands, and it has constant color on each helix, but those differences are hardly noticable. I also discovered that the rainbow command only applies to whole models. So it colors all helices even if you specify only the transmembrane residue range, so “rainbow helix :29-230,263-342” gives the same coloring as “rainbow helix”.</div><div><br></div><div><span class="Apple-tab-span" style="white-space:pre"> </span>Tom</div><div><br></div><div><br><div><div>On Jun 25, 2014, at 8:01 AM, Oliver Clarke wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Hi all,<br><br>Currently, the rainbow function can operate at the levels of per residue, per chain or per model.<br><br>I was wondering whether it would be feasible in a future release to add an additional level, coloring per secondary structural element?<br><br>This would be particularly handy for structures of membrane proteins, where it is often desirable to color each helix/strand a different color, while not varying the color along the helix (and not coloring residues in loops etc). <br><br>Even better would be to have separate “rainbow helix” “rainbow strand” and “rainbow secstruc” commands for finer control, but this is probably not really necessary.<br><br>Cheers,<br>Oliver.<br>_______________________________________________<br>Chimera-users mailing list<br><a href="mailto:Chimera-users@cgl.ucsf.edu">Chimera-users@cgl.ucsf.edu</a><br>http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users<br><br></blockquote></div><br></div></body></html>