Thanks for the great advice! -Wil On Mon, Feb 12, 2018 at 11:01 AM, Elaine Meng <meng@cgl.ucsf.edu> wrote:
Hello Wil, 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: <http://plato.cgl.ucsf.edu/pipermail/chimera-users/2018- February/014344.html>
Command “color red :258.A” would color residue 258 in chain A red, for example.
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.
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: <https://www.rbvi.ucsf.edu/chimera/data/tutorials/systems/outline.html>
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: <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/tutorials/super.html>
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Department of Pharmaceutical Chemistry University of California, San Francisco
On Feb 12, 2018, at 3:38 AM, Wil Ratzan <wilratzan@gmail.com> wrote:
Hello, I truly appreciate the development and distribution of software such as Chimera to the scientific community, but alas I am not 'computer-savvy.'
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?
I apologize if this request seems trivial, and I appreciate any advice. Thanks, -Wil Ratzan