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Normal Modes and Essential Dynamics

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Molecular Modeling of Proteins

Part of the book series: Methods Molecular Biology™ ((MIMB,volume 443))

Summary

Normal mode analysis and essential dynamics analysis are powerful methods used for the analysis of collective motions in biomolecules. Their application has led to an appreciation of the importance of protein dynamics in function and the relationship between structure and dynamical behavior. In this chapter, the methods and their implementation are introduced and recent developments such as elastic networks and advanced sampling techniques are described.

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Acknowledgments

The authors are grateful to Dr. Akio Kitao and Dr. Atsushi Matsumoto for helpful discussions, and to Oliver Lange and Helmut Grubmüller for kindly providing Fig. 4.

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Authors and Affiliations

  1. School of Computing Sciences and School of Biological Sciences, University of East Anglia, Norwich, UK

    Steven Hayward

  2. Max Planck Institute for Biophysical Chemistry, Göttingen, Germany

    Bert L. de Groot

Authors
  1. Steven Hayward
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  2. Bert L. de Groot
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Andreas Kukol

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© 2008 Humana Press, a part of Springer Science+Business Media, LLC

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Hayward, S., de Groot, B.L. (2008). Normal Modes and Essential Dynamics. In: Kukol, A. (eds) Molecular Modeling of Proteins. Methods Molecular Biology™, vol 443. Humana Press. https://doi.org/10.1007/978-1-59745-177-2_5

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  • DOI: https://doi.org/10.1007/978-1-59745-177-2_5

  • Publisher Name: Humana Press

  • Print ISBN: 978-1-58829-864-5

  • Online ISBN: 978-1-59745-177-2

  • eBook Packages: Springer Protocols

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