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Prediction of Protein Function from Theoretical Models

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From Protein Structure to Function with Bioinformatics

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Abstract

Explicit 3D models can be obtained by comparative protein modelling, a mature and predictable technique, fragment assembly ab initio methods for smaller novel or unrecognisable folds and contact-based methods for large protein families. Each modelling method has limitations in model accuracy, which vary further according to the characteristics of the target: as a result, the performance of structure-based function prediction algorithms applied to models is variable. Nevertheless, with care, a wide variety of structure-based methods can be productively applied to protein models, frequently facilitating the planning and interpretation of experimental results. This chapter will first survey the literature on applicability of structure-based methods specifically to models, before discussing a selection of examples in more detail.

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Authors and Affiliations

  1. Institute of Integrative Biology, University of Liverpool, Liverpool, L69 7ZB, UK

    Daniel J. Rigden

  2. International Institute of Molecular and Cell Biology, Trojdena 4, 02-109, Warsaw, Poland

    Iwona A. Cymerman & Janusz M. Bujnicki

  3. Faculty of Biology, Institute of Molecular Biology and Biotechnology, Adam Mickiewicz University, Umultowska 89, 61-614, Poznań, Poland

    Janusz M. Bujnicki

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    Daniel J. Rigden

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Rigden, D.J., Cymerman, I.A., Bujnicki, J.M. (2017). Prediction of Protein Function from Theoretical Models. In: J. Rigden, D. (eds) From Protein Structure to Function with Bioinformatics. Springer, Dordrecht. https://doi.org/10.1007/978-94-024-1069-3_15

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