CUBIC results 2001

Secondary structure composition of proteins in PDB

• Author:  
  Burkhard Rost (rost@columbia.edu
• Title:
  Analysing secondary structure composition of known structures
• Data set:
  2481 sequence-unique chains from PDB (list in ASCII)
• Secondary structure assignment:
  done by DSSP, with the following conversion:
  helix = DSSP [HIG]
  strand = DSSP [EB]
  non-regular all other three DSSP states ([ST ])

1. Two-thirds of all proteins in PDB have 50-65% regular secondary structure (helix, strand).
   results
2. Secondary structure composition is length-independent, however, proteins shorter than 70 residues vary more in their regular secondary structure than longer proteins.
   results
3. There are no well-defined clusters separating all-alpha from all-beta from alpha/beta or alpha-beta proteins.
   results