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Prion Proteins pp 169-197 | Cite as

Molecular Dynamics as an Approach to Study Prion Protein Misfolding and the Effect of Pathogenic Mutations

  • Marc W. van der Kamp
  • Valerie Daggett
Chapter
Part of the Topics in Current Chemistry book series (TOPCURRCHEM, volume 305)

Abstract

Computer simulation of protein dynamics offers unique high-resolution information that complements experiment. Using experimentally derived structures of the natively folded prion protein (PrP), physically realistic dynamics and conformational changes can be simulated, including the initial steps of misfolding. By introducing mutations in silico, the effect of pathogenic mutations on PrP conformation and dynamics can be assessed. Here, we briefly introduce molecular dynamics methods and review the application of molecular dynamics simulations to obtain insight into various aspects of the PrP, including the mechanism of misfolding, the response to changes in the environment, and the influence of disease-related mutations.

Graphical Abstract

Keywords

Prion protein Molecular dynamics simulation Protein dynamics Protein misfolding pH-induced misfolding Disease-related mutations 

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© Springer-Verlag Berlin Heidelberg 2011

Authors and Affiliations

  1. 1.Department of BioengineeringUniversity of WashingtonSeattleUSA

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