Intra rms

DESCRIPTION

"intra_rms" calculates rms fit values for all states of an object over an atom selection relative to the indicated state. Coordinates are left unchanged. The rms values are returned as a python array.

PYMOL API

cmd.intra_rms( string selection, int state)

PYTHON EXAMPLE

 from pymol import cmd
 rms = cmd.intra_rms("(name ca)",1)

USER EXAMPLES/COMMENTS

Fit, Rms, Rms_Cur are finicky and only work when all atom identifiers match: segi, chain, resn, name, alt. If they don't then you'll need to use the alter command to change the identifiers to that they do -- typically that means clearing out the SEGI field, renaming chains, and sometimes renumbering.

SEE ALSO

  Fit, Rms, Rms_Cur, Intra_Fit, Intra_Rms_Cur, Pair_Fit