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Protein-Protein Docking: Generation and Filtering of Complexes

  • Protocol
Protein Structure Prediction

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 143))

Abstract

Knowledge of the three-dimensional (3D) structure of a protein-protein complex provides insights into the function of the system that can guide, for example, the systematic design of novel regulators of activity. However, at the end of 1997, there were more than 5000 protein structures in the Brookhaven databank (PDB) but less than 200 sets of coordinates for protein-protein complexes. This disparity is reminiscent of the protein-sequence/protein-structure gap and similarity motivates the development of computational methods for structure prediction. This chapter describes the strategy to start with the coordinates of the two molecules in their unbound states and then computationally model the structure of the bound complex including the conformational changes on association. For reviews of the field of protein docking see refs. 1–3.

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Author information

Authors and Affiliations

  1. Biomolecular Modelling Laboratory, Imperial Cancer Research Fund, London, UK

    Michael J. E. Sternberg, Henry A. Gabb, Richard M. Jackson & Gidon Moont

Authors
  1. Michael J. E. Sternberg
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  2. Henry A. Gabb
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  3. Richard M. Jackson
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  4. Gidon Moont
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Editor information

Editors and Affiliations

  1. Southern Cross Molecular, Freshford, Bath, UK

    David M. Webster

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© 2000 Humana Press Inc.

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Sternberg, M.J.E., Gabb, H.A., Jackson, R.M., Moont, G. (2000). Protein-Protein Docking: Generation and Filtering of Complexes . In: Webster, D.M. (eds) Protein Structure Prediction. Methods in Molecular Biology™, vol 143. Humana Press. https://doi.org/10.1385/1-59259-368-2:399

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  • DOI: https://doi.org/10.1385/1-59259-368-2:399

  • Publisher Name: Humana Press

  • Print ISBN: 978-0-89603-637-6

  • Online ISBN: 978-1-59259-368-2

  • eBook Packages: Springer Protocols

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