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Hello Eric,</div>
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Thanks for your response<br>
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Yes I mean models.</div>
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There is an "END" at the end of the file and no "ENDMDL" anywhere on the file.</div>
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<br>
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Kind regards,</div>
<div style="font-family: Arial, Helvetica, sans-serif; font-size: 11pt; color: rgb(0, 0, 0); background-color: rgb(255, 255, 255);" class="elementToProof">
Lenye Dlamini<br>
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>From:</b> Eric Pettersen <pett@cgl.ucsf.edu><br>
<b>Sent:</b> Monday, January 30, 2023 9:50 PM<br>
<b>To:</b> Lenye Dlamini <DLMLEN001@myuct.ac.za><br>
<b>Cc:</b> chimerax-users@cgl.ucsf.edu <chimerax-users@cgl.ucsf.edu><br>
<b>Subject:</b> Re: [chimerax-users] Multi-chain single macromolecule .pdb file read as two molecules</font>
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<div>Hi Lenye,
<div class=""><span class="x_Apple-tab-span" style="white-space:pre"></span>When you say "molecules", do you actually mean "models",
<i class="">i.e.</i><span class="" style="font-style:normal"> the file creates multiple models in ChimeraX? Are there MODEL/ENDMDL records in the file? Is there and END record (not ENDMDL record) that's not at the end of the file?</span></div>
<div class=""><span class="x_Apple-tab-span" style="white-space:pre"></span>Yes, sending the PDB would be helpful...</div>
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<div class="">--Eric</div>
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<div class=""><span class="x_Apple-tab-span" style="white-space:pre"></span>Eric Pettersen</div>
<div class=""><span class="x_Apple-tab-span" style="white-space:pre"></span>UCSF Computer Graphics Lab</div>
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<div class="">On Jan 28, 2023, at 1:27 PM, Lenye Dlamini via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu" class="">chimerax-users@cgl.ucsf.edu</a>> wrote:</div>
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Hello,</div>
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I have a homo-oligomeric model that I've refined using phenix and the ISOLDE tool in ChimeraX that's read during deposition as 2 separate molecules, a larger 14mer and a smaller tetramer.<span class="x_Apple-converted-space"> </span><br class="">
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It's read as one molecule in Coot, Chimera and Pymol but read as two distinct molecules in ChimeraX exactly like the deposition. I found this curious and thought that perhaps you might have some idea of what's wrong with the file.<br class="">
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There is nothing that appears obviously incorrect to me in the text of the .pdb file, all TER cards follow the chains and all amino acids and their identifiers are in sequence and correct.<br class="">
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I'd appreciate any ideas you may have and I'm happy to send the file to you if you prefer.</div>
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Thank you,</div>
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Kind regards,</div>
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Lenye Dlamini<br class="">
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