<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; "><div><div>On Sep 26, 2011, at 1:05 PM, jens j birktoft wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite">Hi Everybody<br><br>How can I display a circular DNA structure with three helices without a break at the places where the ends meet according to the numbering system. In the real structure there is no break in the covalent structure</blockquote><br></div><div>Hi Jens,</div><div><span class="Apple-tab-span" style="white-space:pre"> </span>If you are using a PDB file, there needs to be a CONECT record in the file indicating the two atoms that are bonded between the first and last residues. Without that bond, any ribbon depiction will not join those residues. Also, cyclic structures did not have proper ribbon representation before the 1.5.3 release, in case you are using an old version of Chimera.</div><div><span class="Apple-tab-span" style="white-space:pre"> </span>One reasonably easy way to establish that CONECT record if it's missing is to open the structure in Chimera, select the two atoms, and type "bond sel" in the command line (Favorites->Command Line), then write out a new PDB.</div><div><br></div><div>--Eric</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></body></html>