Re: [PyMOL] How to display two or multiple eleectrostatic mapssimultaneously with PyMol?

[DeLano S. <de...@de...>]

Youzhong,

If you're still having trouble getting what you want with Michael's APBS
Plugin, here's how I might display two such maps using PyMOL commands
directly:

load pdbset1.pqr
load pdbset_1.dx

load pdbset3.pqr
load pdbset_3.dx

ramp_new ramp1, pdbset_1, [ -3, 0, 3]
ramp_new ramp3, pdbset_3, [ -3, 0, 3]

show surface

set surface_ramp_above_mode

set surface_color, ramp1, pdbset1
set surface_color, ramp3, pdbset3

Note that the surface_ramp_above_mode setting colors surfaces based on the
potential that would be felt by an atom in contact with the surface, as
opposed to the potential at the molecular surface itself (which is less
meaningful, since no atom could ever feel such a potential).
 
Cheers,
Warren

--
DeLano Scientific LLC
Subscriber Support Services
mailto:su...@de...


-----Original Message-----
From: pym...@li...
[mailto:pym...@li...] On Behalf Of Youzhong Guo
Sent: Thursday, June 26, 2008 7:28 PM
To: pym...@li...
Subject: [PyMOL] How to display two or multiple eleectrostatic
mapssimultaneously with PyMol?

Dear All,

I have difficulty to display two electrostatic maps with PyMol at the same
time .

I can correctly display one map with pdbset1.pqr and pdbset_1.dx as in slide
No.1.
I can also correctly display one map with pdbset3.pqr and pdbset_3.dx as in
slide No.2.
However, when I tried to load all of those four files with PyMol, what I can
get is as in slide No. 3 or No.4. As you can see in slide No.3 or No.4 the
map is not correct as expected.

Please download my files from the following link and see if you can
simultaneously display two maps as shown in slide  No.1 and No.2 with PyMol.

https://webspace.utexas.edu/yg387/Electron_static_potential.zip

Thanks in advance,


Youzhong

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