Dear Michael,

I am using Pymol 1.2r3pre and APBS 1.2, all installed via FINK in my Mac (10.6.2).

I start pymol, build a TRP, call apbs plugin, set grid, run apbs and I can see surface and all, but when trying your commands below, pymol-generated doesn't exist for me.

Either I am doing something wrong or I don't have the right version of Pymol and/or Apbs.

May you clarify me here? This addition to the plugin would be very welcome.

Thanks in advance,


On Sat, Feb 13, 2010 at 04:55, <> wrote:
Message: 3
Date: Wed, 10 Feb 2010 20:26:47 -0500
From: Michael Lerner <>
Subject: [PyMOL] Showing electric field lines
To: pymol mailinglist <>
Content-Type: text/plain; charset="iso-8859-1"

Hi all,

Someone recently asked me if there was a way to display field lines with
PyMOL or with an external plugin. Here's what I wrote:

It turns out that PyMOL recently grew the ability to display field lines.
After you've run APBS, you'll have a map object called pymol-generated. Try
this series of commands from the PyMOL prompt:

gradient my_grad, pymol-generated
ramp_new my_grad_ramp, pymol-generated
color my_grad_ramp, my_grad

Alan Wilter Sousa da Silva, D.Sc.
PDBe group, PiMS project
EMBL - EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK
+44 (0)1223 492 583 (office)