Surface mode

Overview

Sets how PyMOL draws the surface. The default, surface_mode=0 does not include the heteroatoms within the surface; setting it to 1, does include them. See the example images.

• Surface Mode Examples
• 

  surface_mode set to 0, the default. The galactose (blue) is not considered part of the surface.

• 

  surface_mode set to 1 -- now including heteroatoms. The galactose and all heteroatoms (blue) are now considered part of the surface and colored blue.

Examples

# make the above images, or something like them
fetch 2v72
color wheat
color marine, het
zoom het and not resn HOH
hide
as surface, 2v72
# ray 800,600

# default
set surface_mode, 0

# non default
set surface_mode, 1

Usage

set surface_mode, int

where int is in the range of 0 to 4.

Options:

0

Default mode, surfacing with respect to flags.

1

Surface everything, including HET and hydrogens

2

Surface only heavy atoms

3

Surface only visible

4

Surface visible and heavy