Hani,
You can these GUI commands:
A (Action)---preset---ligand sites or
A---find---polar contacts
Hope this helps you!
Peter
syed.abidi skrev 2012-03-19 12:19:
> Dear All,
>
> I have a small query regarding PyMol and I would appreciate if you can help
> me with it. My query is:
>
> How do I a
Hi Hani,
with PyMOL you can visualize polar contacts, using the "distance"
command with "mode=2" argument. See the PyMOLWiki page:
http://pymolwiki.org/index.php/Distance
Example:
distance interface, chain A, chain B, mode=2
However, this is not really a analysis of the interface. Instead I wo
Dear All,
I have a small query regarding PyMol and I would appreciate if you can help me
with it. My query is:
How do I analyze interactions with PyMol after I have docked my files? I wanted
to know which molecules/amino acids are interacting in the docked confirmation.
I would really apprecia
Hi Matthew,
You can specify a chain with "chain X" or the abbreviated "c. X" where
X is the chain identifier. In your case,
# select residue 2 from chain E
select catalytic, resi 2 and chain E
# same as above
select catalytic, i. 2 and c. E
For more help, see the PyMOLWiki
(http://www.pymolwik
Hello Matthew,
You write something like and chain A. To select chain A.
In your case, doing select catalytic, resi 2 and chain E should do the trick
Best!
João [...] Rodrigues
@ http://doeidoei.wordpress.org
On Tue, Jul 13, 2010 at 5:28 AM, Matthew Jenner
wrote:
> Hi PyMOL,
>
> This may be
Hi PyMOL,
This may be a very simple problem to solve. How do I select chain-specific
individual residues in the command line? For example:
1PSO.pdb has two chains: E and I.
If I enter [select catalytic, resi 2] I get the residue I want selected BUT
i also get residue 2 in the I chain selected - w
