[Chimera-users] Picking from list?
meng at cgl.ucsf.edu
Tue Apr 21 09:05:02 PDT 2020
The Model Panel (open from Favorites menu) lists the models, but it does not list all the chains, residues, etc. So I believe the short answer to your question is no. Using the Select menu, you can select whole chains, or all residues of a given type (ALA etc.), functional groups, atoms of a specific element, etc. If you want to choose ranges or individual residues from the sequence of a chain, you can do that in the Sequence window (open from Favorites menu).
This page explains what selection is for and lists some of the common ways:
You can name the current selection using "Name Selection..." in the Select menu, after which that name will also be listed in the Select menu (under Named Selections) so you can easily get it back.
Usually once somebody becomes familiar with Chimera, they can just specify the targets directly in the command line without using selections, e.g.:
color red,r #0:24-58.A,35.B
model 0, residues 24-58 in chain A, 35 in chain B
See command-line atom specification:
I hope this helps,
Elaine C. Meng, Ph.D.
UCSF Chimera(X) team
Department of Pharmaceutical Chemistry
University of California, San Francisco
P.S. if you use the structureViz plugin to Cytoscape, I believe its interface to Chimera is more similar to what you showed in SPDBV. However, access to other Chimera features is more limited, and it is intended mainly for those viewing protein-protein networks in Cytoscape.
> On Apr 21, 2020, at 4:54 AM, Martin Mielke <m_mlk at yahoo.com> wrote:
> Dear all!
> I am new to Chimera so please accept my apologies in advance if this has been discussed previously.
> I have read in the documentation
> https://www.cgl.ucsf.edu/Outreach/Tutorials/GettingStarted.html that Chimera features the "pick on screen" function.
> So far, so good.
> Now, I was wondering if there is also an equivalent for the "Control Panel" featured in the Swiss PDB-Viewer. It can be seen here: https://spdbv.vital-it.ch/main_guide.html
> It allows for a, maybe, more granular cheery-picking from a list. Selections can later be exported as PDB.
> Thanks in advance!
> Best regards,
More information about the Chimera-users