<html><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;">Hi Dmitry,<div class="">When you open an atomic structure (at least for PDB entries from RCSB) there will be tables of information like what chains and nonstandard residues are present. </div><div class=""><<a href="https://rbvi.ucsf.edu/chimerax/docs/user/modelinfo.html" class="">https://rbvi.ucsf.edu/chimerax/docs/user/modelinfo.html</a>></div><div class=""><br class=""></div><div class="">But maybe you are interested in comparing exactly which residues are in the protein and/or nucleic chains.</div><div class=""><br class=""><div class="">(A) for simple counts of atoms and residues per model, an easy way is to just select a whole model, e.g.</div><div class=""><br class=""></div><div class="">select #2</div><div class=""><br class=""></div><div class="">...and then the total number of atoms, residues, ... will be reported briefly in the status line, or you can click the green magnifying glass icon in the top toolbar to raise the Selection Inspector which also lists those things. Then you can repeat with other model(s), "select #1" etc.</div><div class=""><br class=""></div><div class="">(B) if you want to omit waters, ions, ligands, you could be more specific:</div><div class=""><br class=""></div><div class="">select #2 & protein</div><div class="">or </div><div class="">select #2 & nucleic</div><div class=""><br class=""></div><div class="">(C) Then you can get a list of the selected residues in the Log with "info" e.g.</div><div class=""><br class=""></div><div class="">info residues sel</div><div class="">or </div><div class="">info atoms sel</div><div class=""><br class=""></div><div class="">See "info"</div><div class=""><<a href="https://rbvi.ucsf.edu/chimerax/docs/user/commands/info.html#residues" class="">https://rbvi.ucsf.edu/chimerax/docs/user/commands/info.html#residues</a>></div><div class=""><br class=""></div><div class="">(D) If you care mostly about biopolymer residues and the sequences are similar enough to align pretty well, for an easier visual, I like to just use matchmaker and show a pairwise sequence alignment of a chain in one model with a chain in the other model. Then you can see the "missing" residues outlined in black boxes. For example</div><div class=""><br class=""></div><div class="">open 7ljd<br class="">open 5wiv<br class="">preset ribbons/slabs<br class="">view<br class="">mm #2/A to #1/R show true<br class=""></div><div class="">view</div><div class="">color #1/R gold</div><div class=""><br class=""></div><div class="">Screenshot of Sequence Viewer window attached. Black outline boxes are residues with missing coordinates. The orange boxes are just what were used in the final matchmaker fit.</div><div class=""><<a href="https://rbvi.ucsf.edu/chimerax/docs/user/commands/matchmaker.html#show" class="">https://rbvi.ucsf.edu/chimerax/docs/user/commands/matchmaker.html#show</a>></div><div class=""><<a href="https://rbvi.ucsf.edu/chimerax/docs/user/tools/sequenceviewer.html" class="">https://rbvi.ucsf.edu/chimerax/docs/user/tools/sequenceviewer.html</a>></div><div class=""><<a href="https://rbvi.ucsf.edu/chimerax/docs/user/tools/sequenceviewer.html#settings-regions" class="">https://rbvi.ucsf.edu/chimerax/docs/user/tools/sequenceviewer.html#settings-regions</a>></div><div class=""><br class=""></div><div class="">I hope this helps,</div><div class="">Elaine</div><div class=""><div class="">-----<br class="">Elaine C. Meng, Ph.D. <br class="">UCSF Chimera(X) team<br class="">Department of Pharmaceutical Chemistry<br class="">University of California, San Francisco<br class=""><br class=""><img apple-inline="yes" id="38EBAAFC-6998-4E82-B8CD-FC00AF978ACC" width="480" height="628" src="cid:FA4900B0-79AC-4BF9-8AD7-0F8371C15E56" class=""><br class=""><br class=""></div><br class=""><blockquote type="cite" class="">On Sep 17, 2022, at 3:10 AM, Dmitry A. Semchonok via ChimeraX-users <<a href="mailto:chimerax-users@cgl.ucsf.edu" class="">chimerax-users@cgl.ucsf.edu</a>> wrote:<br class=""><br class="">Dear colleagues,<br class="">I want to compare two similar PDB structures.<br class="">I suspect one structure has fewer residues than the other.<br class=""> <br class="">Is there a way to get the list of all components of the PDB structure, including residues, in the txt/doc file?<br class=""> <br class="">Or what is the alternative way to do that? <br class="">Thank you.<br class="">Kind regards,<br class="">Dmitry<br class=""></blockquote><br class=""></div></div></body></html>