<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">You could also use the "rainbow" command or Tools->Depiction->Rainbow to color the whole chain from N to C using a spectrum of colors.<div><br></div><div>--Eric</div><div><br><div apple-content-edited="true"> <span class="Apple-style-span" style="border-collapse: separate; border-spacing: 0px 0px; color: rgb(0, 0, 0); font-family: Helvetica; font-size: 16px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-align: auto; -khtml-text-decorations-in-effect: none; text-indent: 0px; -apple-text-size-adjust: auto; text-transform: none; orphans: 2; white-space: normal; widows: 2; word-spacing: 0px; "><div style="word-wrap: break-word; -khtml-nbsp-mode: space; -khtml-line-break: after-white-space; "><p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Helvetica" size="5" style="font: 16.0px Helvetica"><span class="Apple-converted-space"> <span class="Apple-converted-space"> </span></span>Eric Pettersen</font></p><p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Helvetica" size="5" style="font: 16.0px Helvetica"><span class="Apple-converted-space"> <span class="Apple-converted-space"> </span></span>UCSF Computer Graphics Lab</font></p><p style="margin: 0.0px 0.0px 0.0px 0.0px"><font face="Helvetica" size="5" style="font: 16.0px Helvetica"><span class="Apple-converted-space"> </span><a href="http://www.cgl.ucsf.edu">http://www.cgl.ucsf.edu</a></font></p><br class="Apple-interchange-newline"></div></span> </div><br><div><div>On Oct 8, 2008, at 4:56 PM, Elaine Meng wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><div>Hi Andy,<br>There are lots of different ways to specify or select the atoms you <br>want to color, far too many to list here, but here are a few ideas.<br><br>You can specify #model:residues.chain in commands, for example:<br><br>color violet red #0:355-486.A<br> or even<br>color violet red #0:355-end.A<br><br>More details on command-line specification:<br><<a href="http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/frameatom_spec.html">http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/frameatom_spec.html</a> <br><blockquote type="cite"><br></blockquote><br>Color list:<br><<a href="http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/colortables.html">http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/colortables.html</a>><br><br>Or, if you don't know what the numbers are, you can select the <br>residues in the sequence window (Tools... Structure Analysis... <br>Sequence) by dragging with the mouse, and then use the Actions... <br>Color menu to color them.<br><br>Or, if it is just a few residues you want to color, you can Ctrl-click <br>on an atom to select it, Shift-Ctrl-click on another atom to add it to <br>the selection, press the keyboard up arrow key to "promote" the <br>selection from atoms up to whole residues, and then use the Actions... <br>Color menu.<br><br>I hope this helps,<br>Elaine<br>-----<br>Elaine C. Meng, Ph.D. <a href="mailto:meng@cgl.ucsf.edu">meng@cgl.ucsf.edu</a><br>UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab<br>Department of Pharmaceutical Chemistry<br>University of California, San Francisco<br> <a href="http://www.cgl.ucsf.edu/home/meng/index.html">http://www.cgl.ucsf.edu/home/meng/index.html</a><br><br><br><br>On Oct 6, 2008, at 3:09 PM, Anindito Sen wrote:<br><br><blockquote type="cite">HI all<br></blockquote><blockquote type="cite">I was wondering how to color the c and n terminals of the crystal <br></blockquote><blockquote type="cite">structure docked in the density map different.<br></blockquote><blockquote type="cite">Thanks<br></blockquote><blockquote type="cite"><br></blockquote><blockquote type="cite">Dr. Anindito Sen (Ph.D) Research Associate , Dept. of Biochemistry <br></blockquote><blockquote type="cite">and Molecular Genetics University of Virginia Box 800733 <br></blockquote><blockquote type="cite">Charlottesville, VA 22908<br></blockquote><br>_______________________________________________<br>Chimera-users mailing list<br><a href="mailto:Chimera-users@cgl.ucsf.edu">Chimera-users@cgl.ucsf.edu</a><br>http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users<br></div></blockquote></div><br></div></body></html>