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Computational and Structural Characterisation of Protein Associations

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Protein Dimerization and Oligomerization in Biology

Part of the book series: Advances in Experimental Medicine and Biology ((AEMB,volume 747))

Abstract

Protein-protein associations represent the building blocks of biological systems. The classification of different types of protein association is fundamental to an understanding of the interactions they exhibit. A protein association can be classified as homo- (identical components) or hetero- (non-identical components) and in addition permanent (components only exist and function in an associated state) or transient (components exist independently but interact for a limited time to carry out a specific function). A large number of studies have analysed the physical and chemical characteristics of protein-protein interactions using three-dimensional structures derived from X-ray crystallography. This chapter summarises the major conclusions of these studies, focusing on amino acid preferences and secondary structure packing at interfaces: hydration, hydrophobic and electrostatic effects, conformational changes and evolutionary conservation. The studies highlight differences between the interaction sites and the rest of the protein surface and between different classes of protein association. Common themes in the interfaces of protein associations are also revealed including shape complementarity, the presence of water molecules, a high percentage of arginine residues, intermolecular hydrogen bonds and an energy of association comprising hydrophobic and electrostatic effects. These studies also emphasise how the relative importance of such characteristics is dependant upon the class of protein association, with permanent associations generally displaying different characteristics to transient associations.

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Authors and Affiliations

  1. Department of Biochemistry, School of Life Sciences, University of Sussex, Brighton, UK

    Susan Jones

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  1. Susan Jones
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Editors and Affiliations

  1. School of Molecular Bioscience, University of Sydney, Sydney, Australia

    Jacqueline M. Matthews PhD

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© 2012 Landes Bioscience and Springer Science+Business Media

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Jones, S. (2012). Computational and Structural Characterisation of Protein Associations. In: Matthews, J.M. (eds) Protein Dimerization and Oligomerization in Biology. Advances in Experimental Medicine and Biology, vol 747. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-3229-6_3

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