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Patterns in Protein Sequence and Structure

  • Conference proceedings
  • © 1992

Overview

Editors:
  1. William R. Taylor

    1. Laboratory of Mathematical Biology, National Institute for Medical Research, London, UK

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Part of the book series: Springer Series in Biophysics (BIOPHYSICS, volume 7)

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Table of contents (23 papers)

  1. Front Matter

    Pages I-XII
    Download chapter PDF

  2. Introduction — Patterns, Predictions and Problems

    • W. R. Taylor
    Pages 1-9

  3. A Brief Review of Protein Sequence Pattern Matching

    • David T. Jones
    Pages 11-28

  4. Multiple Sequence Alignment and Flexible Pattern Matching

    • Geoffrey J. Barton
    Pages 29-52

  5. Discussion

    • William R. Taylor
    Pages 53-56

  6. SCRUTINEER: a Program to Explore and Evaluate Protein Sequence Patterns in Databases

    • Peter R. Sibbald, Patrick Argos
    Pages 57-68

  7. Patterns and Specificity — Nucleotide Binding Proteins and Helicases

    • C. Hodgman
    Pages 69-83

  8. Discussion

    • William R. Taylor
    Pages 84-84

  9. The Helix-Turn-Helix Motif and the Cro Repressor

    • Wayne F. Anderson
    Pages 85-95

  10. Discussion

    • William R. Taylor
    Pages 96-98

  11. Assignment of α-Helices in Multiply Aligned Protein Sequences — Applications to DNA Binding Motifs

    • Toby J. Gibson
    Pages 99-110

  12. An Expert System for Secondary Structure Prediction

    • S. R. Presnell, B. I. Cohen, F. E. Cohen
    Pages 111-122

  13. Discussion

    • William R. Taylor
    Pages 123-125

  14. Patterns in Secondary Structure Packing — a Database for Prediction

    • Nigel P. Brown
    Pages 127-140

  15. Secondary and Supersecondary Motifs in Protein Structures

    • J. M. Thornton, B. L. Sibanda, C. M. Wilmot, J. Singh
    Pages 141-155

  16. Discussion

    • William R. Taylor
    Pages 156-158

  17. A Review of Methods for Protein Structure Comparison

    • Christine A. Orengo
    Pages 159-188

  18. Patterns of Sequence and 3-D Structure Variation in Families of Homologous Proteins: Lessons for Tertiary Templates and Comparative Modelling

    • Tom Blundell
    Pages 189-204

  19. Discussion

    • William R. Taylor
    Pages 205-205

  20. Modelling From Remote Sequence Similarity — Enveloped Virus Capsid Structure Modelled on the Non-Enveloped Capsid

    • Stephen D. Fuller, Terje Dokland
    Pages 207-225
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Keywords

About this book

The contents of this volume derive loosely from an EMBO worksh9P held at EMBL (Heidelberg) towards the end of 1989. The topic of Patterns in Protein Sequence and Structure attracted a wide range of participants, from biochemists to computer scientists, and that diversity has, to some extent, remained in the contributions to this volume. The problems of interpreting biological sequence data are to an increasing extent forcing molecular biologists to learn the language of computers, including at times, even the abstruse language of the computer scientists themselves. While, on their side, the computer scientists have discovered a veritable honey-pot of real data on which to test their algorithms. This enforced meeting of two otherwise alien fields has resulted in some difficulties in communication and it was an aim of the EMBO workshop to help resolve these. By the end, most biologists at the meeting had, at least, heard the terms Dynamic Programming and Regular Expression while for their part the computer programmers began to realise that protein sequences might be more than simple Markov chains in a 20-letter alphabet. Thanks to the modern facilities at EMBL, the three day meeting was video-taped and from this a transcript was taken and offered to the speakers as the basis for a contribution to this volume.

Editors and Affiliations

  • Laboratory of Mathematical Biology, National Institute for Medical Research, London, UK

    William R. Taylor

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