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Did you know...

Helicity check

helicity_check shows the evolution of O—N distances over an amino acid sequence

See for further info:

"Models for the 3(10)-helix/coil, pi-helix/coil, and alpha-helix/3(10)-helix/coil transitions in isolated peptides". Protein Sci ROHL and DOIG 5 (8) 1687.

Uses:

  • in the pymol console:
 >run pymol_helicity_check.py
   ----> select some consecutive amino acids
          - this is nicely done with the Display->Sequence tool
 >helicity_check()
  • installing helicity_check
 copy pymol_helicity_check.py in $PYMOL_INSTALL_DIR/modules/pmg_tk/startup
 launch Pymol: you now have a new option in the Plugin menu

helicity_check uses gnuplot to display its results. As a consequence gnuplot needs to be installed.

This plugin was tested on linux only, it might need some modifications to run on other OSes. (hints: launching gnuplot and path to dumpfile)


<source lang="python">

  1. pymol_helicity_check.py
  2. Copyright (c) 2006-2007 Julien ..→
A Random PyMOL-generated Cover. See Covers.