Bishwa,
Yes, PyMOL makes this very easy. To select any protein atoms within 5
Angstroms of a selection just type:
select polymer within 5 of my_sele
To expand the above selection to complete residues just type:
select br. polymer within 5 of my_sele
Cheers,
-- Jason
On Mon, Aug 6, 2012 at 6:
Hi,
Is it possible to select the residues within a range of specific distance using
PyMOL? I am a biological student so any inbuilt commands would be convenient.
However, any suggestion to do so would ease my work.
Best regards,
Bishwa
Hi Brennen,
If the mutagenesis wizard is open, then you can manually call the
do_select command (which is what you'd being doing if you picked with
the mouse). Here's an example,
fetch 1cll, async=0
wizard mutagenesis
cmd.get_wizard().do_select("resi 40")
Cheers,
-- Jason
On Mon, Jul 11, 20
Hi,
I need to select multiple residues (ie on a couple dimers that make up
my protein) in order to mutate all of them. I can mutate by zooming in
and clicking around until I get the residue I want, but that's too
difficult to do with multiple residues of the same code (ie residue
18). Is there a w
Thanks Jerome!
It worked! I also checked out your website and your tutorial in French.
They're both great!
-Charlotte
From: Jerome PANSANEL
To: pymol-users@lists.sourceforge.net
Subject: Re: [PyMOL] Selecting residues on surface only
Date: Wed, 11 Jan 2006 17:26:55 +0100
Hi
Hi,
Le Mercredi 11 Janvier 2006 17:27, Charlotte Habegger-Polomat a écrit :
> Hello Pymol users!
>
> As a fairly unexperienced user of Pymol, I have not yet found a way to
> select all residues in one of the cavities in my protein of interest.
> When I render the protein as a surface, I can't sele
Hello Pymol users!
As a fairly unexperienced user of Pymol, I have not yet found a way to
select all residues in one of the cavities in my protein of interest.
When I render the protein as a surface, I can't select and visualize the
individual residues in the cleft. When not rendered as a surf
Try:
create 4a, byres (mol around 4 . )
Tsjerk
On Wed, 8 Jun 2005 20:50:11 -0700
Eric Hu wrote:
Hi, I ran into a problem selecting nearby residues of
one molecule regarding the binding partner. The "byres"
command seems to work only with one single residue. It
does not select the whole
Hi, I ran into a problem selecting nearby residues of one molecule
regarding the binding partner. The "byres" command seems to work only
with one single residue. It does not select the whole residue when
using the molecule as reference.
creat 4a, byres mol around 4 --- gives incomplete residue
ers-ad...@lists.sourceforge.net
> [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of
> Jason Thomas Maynes
> Sent: Friday, July 09, 2004 4:50 PM
> To: pymol-users@lists.sourceforge.net
> Subject: [PyMOL] selecting residues around
>
> Hello:
>
> I am trying t
Hello:
I am trying to highlight residues that are within 4A of a chain (but in a
different chain):
I have tried:
show sticks, c. c around 4 & c. a
show sticks, c. a within 4 of c. c
Both show some residues within 4A but not all. For example, I can measure
a distance of 3.3 A between 2 atoms in
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