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dc.contributor.authorFuglebakk, Edvineng
dc.contributor.authorTiwari, Sandhya Premnatheng
dc.contributor.authorReuter, Nathalieeng
dc.description.abstractBackground: Elastic network models (ENMs) are based on the simple idea that a protein can be described as a set of particles connected by springs, which can then be used to describe its intrinsic flexibility using, for example, normal mode analysis. Since the introduction of the first ENM by Monique Tirion in 1996, several variants using coarser protein models have been proposed and their reliability for the description of protein intrinsic dynamics has been widely demonstrated. Lately an increasing number of studies have focused on the meaning of slow dynamics for protein function and its potential conservation through evolution. This leads naturally to comparisons of the intrinsic dynamics of multiple protein structures with varying levels of similarity. Scope of review: We describe computational strategies for calculating and comparing intrinsic dynamics of multiple proteins using elastic network models, as well as a selection of examples from the recent literature. Major conclusions: The increasing interest for comparing dynamics across protein structures with various levels of similarity, has led to the establishment and validation of reliable computational strategies using ENMs. Comparing dynamics has been shown to be a viableway for gaining greater understanding for the mechanisms employed by proteins for their function. Choices of ENM parameters, structure alignment or similarity measures will likely influence the interpretation of the comparative analysis of protein motion. General significance: Understanding the relation between protein function and dynamics is relevant to the fundamental understanding of protein structure–dynamics–function relationship. This article is part of a Special Issue entitled Recent developments of molecular dynamics.en_US
dc.rightsAttribution CC BY-NC-NDeng
dc.subjectElastic network modelseng
dc.subjectProtein dynamicseng
dc.subjectIntrinsic dynamicseng
dc.subjectNormal mode analysiseng
dc.titleComparing the intrinsic dynamics of multiple protein structures using elastic network modelsen_US
dc.typePeer reviewed
dc.typeJournal article
dc.rights.holderCopyright 2014 The Authorsen_US
dc.source.journalBiochimica et Biophysica Acta - General Subjects

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