Fold Recognition: Prediction Reports

Novel use of a genetic algorithm for protein structure prediction: Searching template and sequence alignment space

  1. Bruno Contreras-Moreira,
  2. Paul W. Fitzjohn,
  3. Marc Offman,
  4. Graham R. Smith,
  5. Paul A. Bates*

Article first published online: 15 OCT 2003

DOI: 10.1002/prot.10549

Issue

Proteins: Structure, Function, and Bioinformatics

Proteins: Structure, Function, and Bioinformatics

Supplement: Fifth Meeting on the Critical Assessment of Techniques for Protein Structure Prediction

Volume 53, Issue Supplement 6, pages 424–429, 2003

Additional Information

How to Cite

Contreras-Moreira, B., Fitzjohn, P. W., Offman, M., Smith, G. R. and Bates, P. A. (2003), Novel use of a genetic algorithm for protein structure prediction: Searching template and sequence alignment space. Proteins, 53: 424–429. doi: 10.1002/prot.10549

Author Information

  1. Biomolecular Modelling Laboratory, Cancer Research UK London Research Institute, Lincoln's Inn Fields Laboratories, London, United Kingdom

*Biomolecular Modelling Laboratory, Cancer Research UK London Research Institute, Lincoln's Inn Fields Laboratories, 44 Lincoln's Inn Fields, WC2A 3PX London, UK

Publication History

  1. Issue published online: 15 OCT 2003
  2. Article first published online: 15 OCT 2003
  3. Manuscript Accepted: 22 APR 2003
  4. Manuscript Received: 4 FEB 2003

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Keywords:

  • fold recognition;
  • comparative modeling;
  • genetic algorithms;
  • template selection;
  • alignment errors

Abstract

A novel genetic algorithm was applied to all CASP5 targets. The algorithm simultaneously searches template and alignment space. Results show that the current implementation of the method is perhaps most useful in recognizing and refining remote homology targets. This new method is briefly described and results are analyzed. Strengths and weaknesses of the current implementation of the algorithm are discussed. Proteins 2003;53:424–429. © 2003 Wiley-Liss, Inc.

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