Effects of zinc binding on the conformational distribution of the amyloid-beta peptide based on molecular dynamics simulations.
A number of experiments suggested that metal binding can promote the aggregation of the amyloid-beta peptide. In this work, the effects of the zinc binding on the conformational distributions of the full length amyloid-beta peptide are investigated on the basis of extensive molecular dynamics simulations. By comparing the conformational distributions of the apo-peptide and the holo-peptide, we show that the zinc binding can affect the conformational distribution of the amyloid-beta monomer dramatically. Compared with the apo-peptide, the holo-peptide samples more beta-strand conformation for the central hydrophobic cluster 17-21. Meanwhile, the formation probabilities of the salt bridge Asp23-Lys28 and the turn comprising 23-28 are also increased significantly at room temperature. Since these local structures are essential for the amyloid-beta aggregation, the observed effects of the zinc binding indicate that the metal induced conformational change of the monomer is one of the possible mechanisms for the metal promoted aggregation of the amyloid-beta peptide.
Li
Wenfei
W
National Laboratory of Solid State Microstructure and Department of Physics, Nanjing University, Nanjing 210093, China.
Zhang
Jian
J
Su
Yu
Y
Wang
Jun
J
Qin
Meng
M
Wang
Wei
W
D000465:Algorithms; D016229:Amyloid beta-Peptides / Q000737:chemistry / Q000378:metabolism*; D019906:Nuclear Magnetic Resonance, Biomolecular; D011485:Protein Binding; D011487:Protein Conformation; D015203:Reproducibility of Results; D015032:Zinc / Q000378:metabolism*
D016229:Amyloid beta-Peptides; D015032:Zinc