Chapter 9. The Prediction of Macromolecular Complexes by Docking

  1. Janusz M. Bujnicki2,3
  1. Sjoerd J. de Vries,
  2. Marc van Dijk and
  3. Alexandre M. J. J. Bonvin

Published Online: 18 DEC 2008

DOI: 10.1002/9780470741894.ch9

Prediction of Protein Structures, Functions, and Interactions

Prediction of Protein Structures, Functions, and Interactions

How to Cite

de Vries, S. J., van Dijk, M. and Bonvin, A. M. J. J. (2008) The Prediction of Macromolecular Complexes by Docking, in Prediction of Protein Structures, Functions, and Interactions (ed J. M. Bujnicki), John Wiley & Sons, Ltd, Chichester, UK. doi: 10.1002/9780470741894.ch9

Editor Information

  1. 2

    Laboratory of Bioinformatics and Protein Engineering, International Institute of Molecular and Cell Biology, ul. Ks. Trojdena 4, 02-109 Warsaw, Poland

  2. 3

    Laboratory of Bioinformatics, Institute of Molecular Biology and Biotechnology, Faculty of Biology, Adam Mickiewicz University, ul. Umultowska 89, 61-614 Poznan, Poland

Author Information

  1. Bijvoet Center for Biomolecular Research, Science Faculty, Utrecht University, Padualaan 8, 3584CH, Utrecht, The Netherlands

Publication History

  1. Published Online: 18 DEC 2008
  2. Published Print: 19 DEC 2008

ISBN Information

Print ISBN: 9780470517673

Online ISBN: 9780470741894

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Keywords:

  • macromolecular complexes and prediction and docking;
  • CAPRI (Critical Assessment of Predicted Interactions);
  • docking program HADDOCK;
  • mean-field approach and multiple loop conformations;
  • protein-DNA docking data use;
  • docking server performance;
  • macromolecular docking flowchart;
  • docking models and experiment outcome prediction

Summary

This chapter contains sections titled:

  • Introduction

  • Flexibility

  • The Use of Data in Docking

  • State-of-the-art Methodology in Macromolecular Docking

  • Performance of Docking Servers

  • Practical Aspects of Docking

  • The Interpretation of Docking Results

  • Acknowledgments

  • List of Abbreviations

  • References