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General dynamic properties of Abeta12-36 amyloid peptide involved in Alzheimer's disease from unfolding simulation.

Abstract
To study the folding/unfolding properties of a beta-amyloid peptide Abeta(12-36) of Alzheimer's disease, five molecular dynamics simulations of Abeta(12-36) in explicit water were done at 450 K starting from a structure that is stable in trifluoroethanol/water at room temperature with two alpha-helices. Due to high temperature, the initial helical structure unfolded during the simulation. The observed aspects of the unfolding were as follows. 1) One helix (helix 1) had a longer life than the other (helix 2), which correlates well with the theoretically computed Phi values. 2) Temporal prolongation of helix 1 was found before unfolding. 3) Hydrophobic cores formed frequently with rearrangement of amino-acid residues in the hydrophobic cores. The formation and rearrangement of the hydrophobic cores may be a general aspect of this peptide in the unfolded state, and the structural changes accompanied by the hydrophobic-core rearrangement may lead the peptide to the most stable structure. 4) Concerted motions (collective modes) appeared to unfold helix 1. The collective modes were similar with those observed in another simulation at 300 K. The analysis implies that the conformation moves according to the collective modes when the peptide is in the initial stage of protein unfolding and in the final stage of protein folding.
AuthorsShinya Suzuki, Oxana V Galzitskaya, Daisuke Mitomo, Junichi Higo
JournalJournal of biochemistry (J Biochem) Vol. 136 Issue 5 Pg. 583-94 (Nov 2004) ISSN: 0021-924X [Print] England
PMID15632297 (Publication Type: Journal Article, Research Support, Non-U.S. Gov't)
Chemical References
  • Amyloid beta-Peptides
  • Peptide Fragments
  • amyloid beta-protein (12-36)
  • Water
  • Trifluoroethanol
Topics
  • Alzheimer Disease
  • Amyloid beta-Peptides (chemistry)
  • Computer Simulation
  • Hydrogen Bonding
  • Models, Molecular
  • Peptide Fragments (chemistry)
  • Protein Conformation
  • Protein Folding
  • Protein Structure, Secondary
  • Temperature
  • Time Factors
  • Trifluoroethanol (chemistry)
  • Water (chemistry)

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