<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="">I'm talking about the oxygen connected to the non-α–carbon backbone carbon of every amino acid. If it is missing, dssp will not compute secondary structure.<div class=""><br class=""></div><div class="">--Eric<br class=""><div><br class=""><blockquote type="cite" class=""><div class="">On Jan 18, 2023, at 1:10 AM, Enrico Martinez <<a href="mailto:jmsstarlight@gmail.com" class="">jmsstarlight@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div dir="ltr" class="">Hey Eric,<br class=""><div class="">actually I am using a backbone subset defined by Gromacs during the computing. Are you talking about backbone or main-chain sub-space?</div><div class="">I am using the latest version of ChimeraX but also I do have a ChimeraX daily installed on the same machine..</div><div class="">Cheers,</div><div class="">Enrico</div></div><br class=""><div class="gmail_quote"><div dir="ltr" class="gmail_attr">Il giorno mar 17 gen 2023 alle ore 19:19 Eric Pettersen <<a href="mailto:pett@cgl.ucsf.edu" class="">pett@cgl.ucsf.edu</a>> ha scritto:<br class=""></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">Hi Enrico,<br class="">
Do you have all the backbone atoms, including the backbone oxygen? What version of ChimeraX are you using?<br class="">
<br class="">
--Eric<br class="">
<br class="">
Eric Pettersen<br class="">
UCSF Computer Graphics Lab<br class="">
<br class="">
<br class="">
> On Jan 17, 2023, at 7:26 AM, Enrico Martinez via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu" target="_blank" class="">chimerax-users@cgl.ucsf.edu</a>> wrote:<br class="">
> <br class="">
> Dear Chimera-X users!<br class="">
> I am working on the visualization of a trajectory containing only back-bone atoms of the protein obtained from the PCA. When I load this multi-pdb ensemble to Chimera-X I can see only back-bone traces without any secondary structure information. I've tried to use dssp command to re-assign the secondary structure but it did not change the visualization state. Would it be possible to do it in some automatic fashion via some built-in command?<br class="">
> Many thanks in advance<br class="">
> Cheers<br class="">
> Enrico<br class="">
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