<div dir="ltr">Hi Agnieszka,<br><div><br></div><div>_<a href="http://struct_asym.id">struct_asym.id</a> is linked with _atom_site.label_asym_id (<a href="https://mmcif.wwpdb.org/dictionaries/mmcif_pdbx_v50.dic/Items/_atom_site.label_asym_id.html">https://mmcif.wwpdb.org/dictionaries/mmcif_pdbx_v50.dic/Items/_atom_site.label_asym_id.html</a>). In Phenix it becomes chain id, therefore the selection should look like &quot;chain A&quot; (use your _<a href="http://struct_asym.id">struct_asym.id</a> instead of &quot;A&quot;).<br></div><div><br></div><div>Let us know if this doesn&#39;t work.</div><div><br></div><div>Best regards,</div><div>Oleg Sobolev.</div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">On Wed, Feb 10, 2021 at 9:17 AM Pavel Afonine &lt;<a href="mailto:pafonine@lbl.gov">pafonine@lbl.gov</a>&gt; wrote:<br></div><blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">Hi Agnieszka,<br>
<br>
currently the only way to make atom selections is to use Phenix atom <br>
selection syntax. To learn about atom selection syntax please refer to <br>
the following resources:<br>
<br>
<a href="http://phenix-online.org/documentation/reference/atom_selections.html#examples-for-selection-expressions" rel="noreferrer" target="_blank">http://phenix-online.org/documentation/reference/atom_selections.html#examples-for-selection-expressions</a><br>
<br>
Pavel<br>
<br>
<br>
On 2/10/21 05:18, Agnieszka Kiliszek wrote:<br>
&gt; Hi everyone,<br>
&gt;<br>
&gt; I would like to generate polder maps in phenix of selected ligand <br>
&gt; molecules using mmCIF files. For me, the most convenient way of <br>
&gt; selecting atoms of ligand was to use  &quot;_<a href="http://struct_asym.id" rel="noreferrer" target="_blank">struct_asym.id</a>&quot;. Therefore I <br>
&gt; tried syntax selection segid but I received error &quot;no atoms selected&quot;. <br>
&gt; In pymol similar syntax &quot;segi&quot; works for the same mmCIF file.<br>
&gt;<br>
&gt; What can be the reason of the error? Is it a way to select atoms of <br>
&gt; ligand using &quot;_<a href="http://struct_asym.id" rel="noreferrer" target="_blank">struct_asym.id</a>&quot; in phenix.polder?<br>
&gt;<br>
&gt; Best regards,<br>
&gt;<br>
&gt; Agnieszka<br>
&gt;<br>
&gt;<br>
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