Wild type and mutants of the HET-s(218-289) prion show different flexibility at fibrillar ends: A simulation study

TitleWild type and mutants of the HET-s(218-289) prion show different flexibility at fibrillar ends: A simulation study
Publication TypeJournal Article
Year of Publication2014
AuthorsFriedman R., Caflisch A.
JournalProteins: Structure, Function, and Bioinformatics
Volume82
Issue3
Pagination399-404
Date Published2014 Mar
Type of ArticleResearch Article
ISSN1097-0134
KeywordsFungal Proteins, Molecular Dynamics Simulation, Mutation, Pliability, Protein Conformation, Protein Multimerization
Abstract

The C-terminal segment (residues 218-289) of the HET-s protein of the filamentous fungus Podosporina anserina is a prion-forming domain. The structural model of the HET-s(218-289) amyloid fibril based on solid-state nuclear magnetic resonance (NMR) restraints shows a β solenoid topology which is comprised of a β-sheet core and interconnecting loops. For the single-point mutants Phe286Ala and Trp287Ala, slower aggregation rates in vitro and loss of prionic infectivity have been reported recently. Here we have used molecular dynamics to compare the flexibility of the mutants and wild type. The simulations, initiated from a trimeric aggregate extracted from the NMR structural model, show structural stability on a 100-ns time scale for wild type and mutants. Analysis of the fluctuations along the simulations reveals that the mutants are less flexible than the wild type in the C-terminal segment at only one of the two external monomers. Analysis of interaction energy and buried accessible surface indicates that residue Phe286 in particular is stabilized in the Trp287Ala mutant. The simulation results provide an atomistic explanation of the suggestion (based on indirect experimental evidence) that flexibility at the protofibril end(s) is required for fibril elongation. Moreover, they provide further evidence that the growth of the HET-s amyloid fibril is directional.

DOI10.1002/prot.24402
pubindex

0182

Alternate JournalProteins
PubMed ID24038616