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Protein Structure Prediction

  • Protocol
Bioinformatics

Part of the book series: Methods in Molecular Biology™ ((MIMB,volume 453))

Abstract

Protein structure prediction has matured over the past few years to the point that even fully automated methods can provide reasonably accurate three-dimensional models of protein structures. However, until now it has not been possible to develop programs able to perform as well as human experts, who are still capable of systematically producing better models than automated servers. Although the precise details of protein structure prediction procedures are different for virtually every protein, this chapter describes a generic procedure to obtain a three-dimensional protein model starting from the amino acid sequence. This procedure takes advantage both of programs and servers that have been shown to perform best in blind tests and of the current knowledge about evolutionary relationships between proteins, gained from detailed analyses of protein sequence, structure, and functional data.

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Acknowledgments

The authors gratefully acknowledge Claudia Bertonati, Gianni Colotti, Andrea Ilari, Romina Oliva, and Christine Vogel for manuscript reading and suggestions, and Julian Gough and Martin Madera for discussions.

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Authors and Affiliations

  1. Biofocus DPI, London, United Kingdom

    Bissan Al-Lazikani

  2. The Journal of Cell Biology, Rockefeller University Press, New York, NY

    Emma E. Hill

  3. Institute of Molecular Biology and Pathology (IBPN), National Research Council (CNR), Rome, Italy

    Veronica Morea

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  1. Bissan Al-Lazikani
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  2. Emma E. Hill
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  3. Veronica Morea
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Editors and Affiliations

  1. School of Mathematical Sciences, Queensland University of Technology, Brisbane, Queensland, Australia

    Jonathan M. Keith PhD

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Al-Lazikani, B., Hill, E.E., Morea, V. (2008). Protein Structure Prediction. In: Keith, J.M. (eds) Bioinformatics. Methods in Molecular Biology™, vol 453. Humana Press. https://doi.org/10.1007/978-1-60327-429-6_2

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  • DOI: https://doi.org/10.1007/978-1-60327-429-6_2

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