Package: profphd (1.0.42-3)

[ Source: profphd  ]

secondary structure and solvent accessibility predictor

This package provides prof(1), the protein secondary structure, accessibility and transmembrane helix predictor from Burkhard Rost. Prediction is either done from protein sequence alone or from an alignment - the latter should be used for optimal performance.

How well does prof(1) perform?

 * Secondary structure is predicted at an expected average accuracy > 72% for
   the three states helix, strand and loop.

 * Solvent accessibility is predicted at a correlation coefficient
   (correlation between experimentally observed and predicted relative
   solvent accessibility) of 0.54

 * Transmembrane helix prediction has an expected per-residue accuracy of
   about 95%.  The number of false positives, i.e., transmembrane helices
   predicted in globular proteins, is about 2%.

Other Packages Related to profphd

• dep: librg-utils-perl

  parsers and format conversion utilities used by (e.g.) profphd

• dep: perl

  Larry Wall's Practical Extraction and Report Language

• dep: profnet-prof

  neural network architecture for profacc

• dep: profphd-net

  neural network architecture for profphd

• dep: profphd-utils

  profphd helper utilities convert_seq and filter_hssp

• rec: pp-popularity-contest

  PredictProtein popularity contest

Download profphd

Download for all available architectures

Architecture	Package Size	Installed Size	Files
all	4,404.7 kB	26,199.0 kB	[list of files]