Difference between revisions of "Surface mode"
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== Overview == | == Overview == | ||
| − | Sets how PyMOL draws the surface. | + | 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. |
| + | |||
| + | <gallery caption="Surface Mode Examples" heights="175px" widths="175px"> | ||
| + | Image:sm0.png|[[surface_mode]] set to 0, the default. The galactose (blue) is not considered part of the surface. | ||
| + | Image:sm1.png|[[surface_mode]] set to 1 -- now including heteroatoms. The galactose and all heteroatoms (blue) are now considered part of the surface and colored blue. | ||
| + | </gallery> | ||
| + | |||
| + | == Examples == | ||
| + | <source lang="python"> | ||
| + | # 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 | ||
| + | </source> | ||
== Syntax == | == Syntax == | ||
Revision as of 14:48, 21 August 2008
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
Syntax
set surface_mode, int
where int is in the range of 0 to 4.
0 - default mode
1 - force inclusion of HET atoms