Re: [PyMOL] How to show electrostatic interactions in Pymol on the wanted residue

[Joel T. <joe...@ot...>]

Hi Gundala,

There are a number of ways but primarily PyMOL will do it automatically under Action>find>polar contacts (to any atoms). This finds both hydrogen bonds and electrostatic interactions. You can select the residue you want (Lysine) and do it that way.

Also you can simply measure the distance between the atoms (nitrogen and oxygens. You can also turn of the labels.

Hope that helps
J

From: Gundala Viswanath <gun...@gm...>
Sent: Sunday, 31 October 2021 3:14 AM
To: pymol-users <pym...@li...>
Subject: [PyMOL] How to show electrostatic interactions in Pymol on the wanted residue

Hi,

I have the following Pymol visual,
The green molecule is  the receptor and red/yellow is the ligand.
In the ligand I highlighted Lysine (K) residue as yellow.

[cid:image001.png@01D7CFFE.4B9AADB0]


What I want to do is to highlight and draw the electrostatic contact of the ligand especially with Lysine residue. Like this in Pymol:

[cid:image002.png@01D7CFFE.4B9AADB0]

How can I achieve that?
G.V