dss defines
secondary
structure based on backbone geometry and hydrogen bonding patterns.
With PyMOL, heavy emphasis is placed on cartoon aesthetics, and so both hydrogen bonding patterns and backbone geometry are used in the assignment process. Depending upon the local context, helix and strand assignments are made based on geometry, hydrogen bonding, or both.
This command will generate results which differ slightly from DSSP and other programs. Most deviations occur in borderline or transition regions. Generally speaking, PyMOL is more strict, thus assigning fewer helix/sheet residues, except for partially distorted helices, which PyMOL tends to tolerate.
WARNING: This algorithm has not yet been rigorously validated.
USAGE
dss [selection [, state]]
ARGUMENTS
- selection = string: atom selection {default: (all)}
- state = integer: state-index if positive number or any of these:
- state = 0: consensus over all states {default}
- state = -1: current state
- state = -2: consensus ..→