Secondary Structure Prediction by Chou-Fasman, GOR and Neural Network (ver. 1.1)

Predict locations of alpha-helix and beta-strand from amino acid sequence using Chou-Fasman method, Garnier-Osguthorpe-Robson method, and Neural Network method.
  1. Select a prediction method or choose the methods to be compared

    Chou-Fasman GOR Neural Network

  2. Input the amino acid sequence by one of the following ways

    1. Upload the amino acid sequence file (flat format):
    2. Paste the amino acid sequence in the box:

Sample input is here.

The method is implemented in this server based on the descrption in the following paper;
Peter Prevelige, Jr. and Gerald D. Fasman (1989) Chapter 9: Chou-Fasman Prediction of the Secondary Structure of Proteins: The Chou-Fasman-Prevelige Algorithm. in Prediction of Protein Structure and the Principles of Protein Conformation (edited by Gerald D. Fasman), Plenum, New York, pp.391-416 (ISBN 0306431319).
Garnier, J., Osguthorpe, D.J., and Robson, B. (1978) Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins. J. Mol. Biol. 120, 97-120.
Ning Qian and Terrence J. Sejnowski (1988) Predicting the secondary structure of globular proteins using neural network models. J. Mol. Biol. 202, 865-884.

The Principle in Chou and Fasman method

Secondary structure prediction method by Chou and Fasman (CF) is one of the oldest and simplest method. The method was originally presented in 1974 and later improved in 1977, 1978, 1979, 1985 and 1989.

CF depends on observed frequency of types of amino acid residues in alpha-elix, beta strand, beta turn, and other structures in protein three-dimensional structures. ....

The Principle in GOR method

Secondary structure prediction method by GOR is one of the popular method utilizing information theory.


The Principle in Neural Network method


update: 22nd, Feb., 2009
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