Skip to main content
Article
Comparisons of Experimental and Computed Protein Anisotropic Temperature Factors
Proteins: Structure, Function, and Bioinformatics
  • Lei Yang, Iowa State University
  • Guang Song, Iowa State University
  • Robert L. Jernigan, Iowa State University
Document Type
Article
Publication Version
Accepted Manuscript
Publication Date
7-1-2009
DOI
10.1002/prot.22328
Abstract

Because of its appealing simplicity, the anisotropic network model (ANM) has been widely accepted and applied to study many molecular motion problems: such as ribosome motions, the molecular mechanisms of GroEL-GroES function, allosteric changes in hemoglobin, motor-protein motions, and conformational changes in general. However, the validity of the ANM has not been closely examined. In this work, we use ANM to predict the anisotropic temperature factors of proteins obtained from X-ray and NMR data. The rich, directional anisotropic temperature factor data available for hundreds of proteins in the Protein Data Bank (PDB) are used as validation data to closely test the ANM model. The significance of this work is that it presents a timely, important evaluation of the model, shows the extent of its accuracy in reproducing experimental anisotropic temperature factors, and suggests ways to improve the model. An improved model will help us better understand the internal dynamics of proteins, which in turn can greatly expand the usefulness of the models, which has already been demonstrated in many applications.

Comments

This is the peer reviewed version of the following article: Yang, Lei, Guang Song, and Robert L. Jernigan. "Comparisons of experimental and computed protein anisotropic temperature factors." Proteins: Structure, Function, and Bioinformatics 76, no. 1 (2009): 164-175, which has been published in final form at doi: 10.1002/prot.22328. This article may be used for non-commercial purposes in accordance with Wiley Terms and Conditions for Self-Archiving.

Copyright Owner
Wiley-Liss, Inc.
Language
en
File Format
application/pdf
Citation Information
Lei Yang, Guang Song and Robert L. Jernigan. "Comparisons of Experimental and Computed Protein Anisotropic Temperature Factors" Proteins: Structure, Function, and Bioinformatics Vol. 76 Iss. 1 (2009) p. 164 - 175
Available at: http://works.bepress.com/robert-jernigan/201/