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Included in psico
This command or function is available from psico, which is a PyMOL extension.

Module psico.editing

sst is a wrapper for the SST secondary structural assignment web service. The command updates PyMOL's ss atom property.

SST does minimum message length inference of secondary structure based on C-alpha atom positions.


sst [ selection [, raw [, state ]]]


  • selection = str: atom selection {default: all}
  • raw = str: atom property to assign the sst secondary structure type to. This type will also be translated to PyMOL's H/S/L types and assiged to the ss property {default: }
  • state = int: object state {default: -1 (current state)}


import psico.editing
fetch 1ubq, async=0

sst all, raw=custom
as cartoon

color gray
spectrum custom, selection=guide
set cartoon_discrete_colors, 1
label guide, custom

See Also