<div dir="ltr">Thank you so much for the answer. This does indeed solve my problem.<div><br></div><div>All the best,</div><div>Rob</div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Mon, Mar 23, 2020 at 11:47 AM Elaine Meng <<a href="mailto:meng@cgl.ucsf.edu">meng@cgl.ucsf.edu</a>> wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left-width:1px;border-left-style:solid;border-left-color:rgb(204,204,204);padding-left:1ex">Hi Rob,<br>
If you open 6vxx as PDB format (not mmCIF) and then save PDB, it will preserve the SEQRES information including the residues without coordinates.<br>
<br>
It is a bug that opening from mmCIF and then saving a session or PDB does not save this information, but most effort is now on ChimeraX. In ChimeraX, saving a session after opening a structure from mmCIF saves the sequence info, but saving a PDB file does not, so I will open a ChimeraX bug ticket for that.<br>
<br>
Sorry for the inconvenience,<br>
Elaine<br>
-----<br>
Elaine C. Meng, Ph.D. <br>
UCSF Chimera(X) team<br>
Department of Pharmaceutical Chemistry<br>
University of California, San Francisco<br>
<br>
> On Mar 23, 2020, at 7:02 AM, Rob Blakemore <<a href="mailto:robert.blakemore@tufts.edu" target="_blank">robert.blakemore@tufts.edu</a>> wrote:<br>
> <br>
> Hi,<br>
> I'm encountering a problem wherein unstructured residues are present in the sequence the first time I fetch it from PDB, but are omitted after I save the file locally and reopen it. Has anyone else encountered this and would you happen to know a workaround?<br>
> <br>
> Details<br>
> I'm running Chimera 1.14 (build 42094) on MacOS Mojave V10.14.6<br>
> I'm using 6VXX as the PDB file.<br>
> <br>
> When I fetch a structure by ID: (PDB mmCIF) and open a sequence (Tools --> Sequence --> Sequence), it shows me a complete sequence containing both residues present in the structure, as well as unresolved/unstructured residues. The unresolved residues are outlined by a red border.<br>
> <br>
> However, if I save this session to a file or save the structure to PDB and then reopen it; if I then open the sequence, it only shows me the sequence of residues present in the structure, and omits all of the unresolved / unstructured residues. (All the red outlined residues are now gone)<br>
> <br>
> Is there any way to preserve the unstructured residues when saving these files? <br>
> <br>
> Thank you,<br>
> Rob Blakemore<br>
> <a href="mailto:robert.blakemore@tufts.edu" target="_blank">robert.blakemore@tufts.edu</a><br>
> <br>
> <br>
> <br>
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</blockquote></div>