Robert,
If you're using version 0.93 or greater, set mesh_width, value
will adjust the mesh thickness in units of pixels. Something in the
range of 1.5-2.5 usually works best.
set mesh_width,2.0
ray
If you're using an older version, you'll need to set mesh_radius
instead, which is in angstrom units.
To display the density around a ligand, create a mesh using the "carve"
option.
load map.ccp4
load protein.pdb
load ligand.pdb
isomesh m1, map, 1.0, ligand, carve=2.1
Cheers,
Warren
--
mailto:[email protected]
Warren L. DeLano, Ph.D.
Principal Scientist
DeLano Scientific LLC
Voice (650)-346-1154
Fax (650)-593-4020
> -----Original Message-----
> From: [email protected] [mailto:pymol-users-
> [email protected]] On Behalf Of Robert
> Sent: Wednesday, December 10, 2003 2:55 PM
> To: 'Warren L. DeLano'
> Cc: [email protected]
> Subject: [PyMOL] electron density settings
>
> Hi there,
>
> 1. How can I reduce the density-map line thickness in the ray-traced
> image?
> 2. Is there a way to just display the density around a ligand
>
> many thanks
> robert
>
> Robert Schwarzenbacher, PhD
> The Joint Center for Structural Genomics
> phone: 858 822 3637
>
>
>
>
>
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