<div dir="ltr">Thanks for the great advice! <div><br></div><div>-Wil</div></div><div class="gmail_extra"><br><div class="gmail_quote">On Mon, Feb 12, 2018 at 11:01 AM, Elaine Meng <span dir="ltr"><<a href="mailto:meng@cgl.ucsf.edu" target="_blank">meng@cgl.ucsf.edu</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hello Wil,<br>
If you just mean that you don’t know how to specify or select individual residues, there are many ways…. some are outlined in this recent post:<br>
<<a href="http://plato.cgl.ucsf.edu/pipermail/chimera-users/2018-February/014344.html" rel="noreferrer" target="_blank">http://plato.cgl.ucsf.edu/<wbr>pipermail/chimera-users/2018-<wbr>February/014344.html</a>><br>
<br>
Command “color red :258.A” would color residue 258 in chain A red, for example.<br>
<br>
Also, if you are showing the sequence, another way to select a specific residue is by using the mouse to drag a box around it in the sequence.<br>
<br>
If you have a sequence alignment already, it is easy to show the conservation from that alignment on the structure. This tutorial is all about mapping sequence conservation:<br>
<<a href="https://www.rbvi.ucsf.edu/chimera/data/tutorials/systems/outline.html" rel="noreferrer" target="_blank">https://www.rbvi.ucsf.edu/<wbr>chimera/data/tutorials/<wbr>systems/outline.html</a>><br>
<br>
If you never showed sequence alignments in Chimera before, this tutorial helps get you started, and it also has a color-by-conservation example at the end:<br>
<<a href="http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/super.html" rel="noreferrer" target="_blank">http://www.rbvi.ucsf.edu/<wbr>chimera/docs/UsersGuide/<wbr>tutorials/super.html</a>><br>
<br>
I hope this helps,<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>
<div class="HOEnZb"><div class="h5"><br>
> On Feb 12, 2018, at 3:38 AM, Wil Ratzan <<a href="mailto:wilratzan@gmail.com">wilratzan@gmail.com</a>> wrote:<br>
><br>
> Hello,<br>
> I truly appreciate the development and distribution of software such as Chimera to the scientific community, but alas I am not 'computer-savvy.'<br>
><br>
> I would like to map highly conserved residues of a protein onto its crystal structure (PDB 3V0I). I can view the PDB file of the crystal structure using Chimera, but I am having a hard time figuring out how to highlight residues. Could you please give me some advice about how to identify and mark particular residues using this file?<br>
><br>
> I apologize if this request seems trivial, and I appreciate any advice.<br>
> Thanks,<br>
> -Wil Ratzan<br>
<br>
</div></div></blockquote></div><br></div>