<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Just a short erratum: the PDB limit is actually 62 chains (all upper and lower case letters plus digits).<div class=""><br class=""></div><div class="">—Eric<br class=""><div><br class=""><blockquote type="cite" class=""><div class="">On Apr 2, 2018, at 2:51 PM, Eric Pettersen <<a href="mailto:pett@cgl.ucsf.edu" class="">pett@cgl.ucsf.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><meta http-equiv="Content-Type" content="text/html; charset=utf-8" class=""><div style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Hi John,<div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>The PDB format only supports single-character chain IDs (one of the reasons for mmCIF format), so it is impossible to save structures with more than 36 chains in PDB format without losing chain information.</div><div class=""><span class="Apple-tab-span" style="white-space:pre"> </span>A semi-workaround is to:</div><div class=""><br class=""></div><div class="">1) In ChimeraX: split the structure into multiple structures, one per chain (“split #1”)</div><div class="">2) Save those models into a multi-MODEL PDB file (“save ~/rib.pdb models #1”)</div><div class="">3) Read them into Chimera.</div><div class="">4) If there are <= 36 models, combine them into a single model (“combine” button of the Model Panel), otherwise you just have to work with them as separate models.</div><div class=""><br class=""></div><div class="">—Eric</div><div class=""><br class=""><div class="">
<div style="letter-spacing: normal; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px; -webkit-text-stroke-width: 0px; word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class=""><div class=""><span class="Apple-tab-span" style="white-space: pre;"> </span>Eric Pettersen</div><div class=""><span class="Apple-tab-span" style="white-space: pre;"> </span>UCSF Computer Graphics Lab</div><div class=""><br class=""></div></div>
</div>
<div class=""><br class=""><blockquote type="cite" class=""><div class="">On Apr 2, 2018, at 2:29 PM, John Mercer, Ph.D. <<a href="mailto:jmercer@duke.edu" class="">jmercer@duke.edu</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div class="">Hi Elaine,<br class=""><br class="">I load a ribosome mmcif file in ChimeraX and save it at as a PDB file. It loads and works fine in Chimera but all the chain identifiers have disappeared. Is there away to save a PDB file from ChimeraX that retains the identifiers? I am wanting to use the larger set of tools in Chimera when only mmcif files are available. <br class=""><br class="">Best,<br class="">-John<br class="">_______________________________________________<br class="">Chimera-users mailing list: <a href="mailto:Chimera-users@cgl.ucsf.edu" class="">Chimera-users@cgl.ucsf.edu</a><br class="">Manage subscription: <a href="http://www.rbvi.ucsf.edu/mailman/listinfo/chimera-users" class="">http://www.rbvi.ucsf.edu/mailman/listinfo/chimera-users</a><br class=""></div></div></blockquote></div><br class=""></div></div></div></blockquote></div><br class=""></div></body></html>