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Secondary structure prediction

Part 4. Bioinformatics

4.6. Methods for Structure Analysis and Prediction

Short Specialist Review

  1. Ching Wai Tan,
  2. David T. Jones

Published Online: 15 APR 2005

DOI: 10.1002/047001153X.g406316

Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics

Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics

How to Cite

Tan, C. W. and Jones, D. T. 2005. Secondary structure prediction. Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics. 4:4.6:76.

Author Information

  1. University College London, London, UK

Publication History

  1. Published Online: 15 APR 2005

Abstract

The problem of predicting protein secondary structure from amino acid is briefly reviewed. The discussion covers the problem of defining secondary structure, the basis of modern prediction methods, and finally, the problem of how predictions can be evaluated. Modern methods are found to be between 74 and 80% accurate (per-residue) for 3-state (helix/strand/coil) prediction, and it is becoming evident that further improvements in accuracy will only come from considering the aspects of the tertiary structure of proteins.

Keywords:

  • secondary structure;
  • prediction;
  • machine learning;
  • neural network;
  • CASP;
  • algorithms;
  • sequence analysis