[PyMOL] Displaying internal cavities as a surface or a mesh

[Irwin S. <irw...@po...>]

Hi,

Apologies if this is a rudimentary question. I'd like to display an internal binding pocket around a compound as a surface (or mesh). I don't need to detect the presence of a cavity but simply show its approximate boundaries.

  1.  Is there a way to display the cavity as a surface about specific residues or objects?
  2.  Is there a way to display the cavity as a mesh instead of a surface?
  3.  Can the transparency of a mesh be set to a user defined value?

Thanks in advance for your help,

Irwin