[Chimera-users] How to explore two protein structures on the same screen?

Elaine Meng meng at cgl.ucsf.edu
Wed Jul 29 10:20:30 PDT 2015

Hi Jing,
For an overview, you might want to try the “getting started” tutorial -- moving separately is mentioned in “models and model status,” and specifying individual residues is covered in “selection with the mouse” and “command/target”: 

However, I’ll try to list the ways briefly in this message.

There are many ways to move structures separately:
(1) “freezing” (deactivating) some structure(s) and moving the others with the mouse
(2) superimposing similar structures
(3) using movement commands (move, turn, etc.) with “models” keyword to move only specific models

There are many ways to act on individual residues:
(1) selecting them with Ctrl-click on the structure
(2) selecting them in the sequence window (menu: Favorites… Sequence)
(3) just specifying the residue(s) directly in a command, for example:

color red #0:325.A
… to color residue 325 in chain A of model 0
select #1:45.A,55.B
… to select residues 45 in chain A and 55 in chain B of model 1

I hope this helps,
Elaine C. Meng, Ph.D.                       
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Jul 28, 2015, at 1:29 AM, Jing Tang <jing.tang at helsinki.fi> wrote:

> Hi,
> I opened two protein structures, say 2JIT and 4WA9 and they were partially overlapped on the screen. How to move one protein so that they can be separated more? I can only move the two proteins as a whole but not individually.
> Further, I would like to highlight one residue for a particular protein and I could not find a way to first select a protein and then a residue. 
> Thanks,
> Jing

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