Mesh

Overview

PyMOL has a web-like, Mesh representation, as shown in the example images below.

Using the internal GUI, you may enable mesh by clicking the box with the letter S in it and selecting mesh.

Syntax

# show the selection, SEL, in mesh
show mesh, SEL

# using the 'as' keyword
as mesh, SEL

Example

select B, i. 40-110
show mesh, B

• 

  Mesh Representation Example

• 

  Mesh in ray_trace_mode,0

• 

  Mesh in ray_trace_mode,3; burnt and probably not what you're looking for.

• 

  Mesh with width of 0.5, half of normal

• 

  Using mesh is a great way to show enclosed pockes.

Settings

• cavity_cull
• mesh_carve_cutoff
• mesh_cutoff
• mesh_quality
• mesh_carve_selection
• mesh_grid_max
• mesh_radius
• mesh_carve_state
• mesh_lighting
• mesh_skip
• mesh_clear_cutoff
• mesh_mode
• mesh_solvent
• mesh_clear_selection
• mesh_negative_color
• mesh_type
• mesh_clear_state
• mesh_negative_visible
• mesh_width
• mesh_color
• mesh_normals

Notes

• Mesh doesn't ray trace well in set [ray_trace_mode]], 3. Try setting this to 0 if you mesh looks wonky.

See Also

Isomesh Surface