<div dir="ltr"><div dir="ltr">Thank you so much. it worked. (I used this command for 2-1-60-61 dihedrals : sel @/serialNumber=2 | @/serialNumber=1 | @/serialNumber=60|@/serialNumber=61)</div><div>Thank you again.</div><div>Baris</div><div><br></div></div><br><div class="gmail_quote"><div dir="ltr" class="gmail_attr">Eric Pettersen <<a href="mailto:pett@cgl.ucsf.edu">pett@cgl.ucsf.edu</a>>, 7 Eyl 2022 Çar, 19:44 tarihinde şunu yazdı:<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 Barış,<br>
The RMSD plot only plots all atoms if none are selected. Is the problem that you don't know how to select the desired atoms -- maybe because they have duplicate names? There are several alternatives. If we are talking about a very small number of atoms, you could just select them with the mouse -- control-click the first, then shift-control-click the second, third, fourth, etc. Obviously, for any large amount of atoms this would be tedious. You can also use commands to select by element type or atom serial number. Here are example commands:<br>
<br>
Select elements Pd, Cl, and C:<br>
<br>
sel @/element=Pd | @/element=Cl | @/element=C<br>
<br>
Select atom serial numbers 7 through 10:<br>
<br>
sel @/serialNumber>=7 & @/serialNumber<=10<br>
<br>
<br>
The '|' in the first command forms the union between its left and right sides. Conversely, the '&' in the second command takes the intersection of its left and right sides.<br>
<br>
--Eric<br>
<br>
Eric Pettersen<br>
UCSF Computer Graphics Lab<br>
<br>
<br>
> On Sep 7, 2022, at 6:26 AM, Barış KURT via Chimera-users <<a href="mailto:chimera-users@cgl.ucsf.edu" target="_blank">chimera-users@cgl.ucsf.edu</a>> wrote:<br>
> <br>
> Hello,<br>
> my intention is to plot RMSD chart for only Pd,Cl,Cl,C atoms (their numbers are 1,2,3,4). But I couldn't find a way to do it.Also II want to plot dihedral RMSD for all atoms except C,H,Cl,P atoms.How can I do that?<br>
> Thank you<br>
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</blockquote></div>