Jmol/Depth from surface

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This page is under construction. Eric Martz 00:56, 18 January 2021 (UTC)

The atom property surfacedistance in Jmol is each atom's distance from the surface of the macromolecule. The units of surfacedistance are Ångstroms. You can select atoms by distance from the surface, and report the average, minimum, or maximum surfacedistance of a group of atoms. Atoms, cavity/pocket/tunnel isosurfaces, and other objects can be colored by distance from the surface.

Drag the structure with the mouse to rotate


  1. For the list of Jmol's color schemes, look for "set property colorscheme" under set (misc) in the command documentation.
  2. Jmol commands are explained in the interactive scripting documentation at

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