Prediction of AChE-ligand affinity using the umbrella sampling simulation

NT Lan, KB Vu, MKD Ngoc, PT Tran, DM Hiep… - Journal of Molecular …, 2019 - Elsevier
Acetylcholinesterase (AChE) is characterized as a key target for designing inhibitors to
prevent Alzheimer's disease (AD). The binding free energy of a ligand to the AChE enzyme …

Silver nanoparticles alter the dimerization of Aβ 42 studied by REMD simulations

QM Thai, PT Tran, HTT Phung, MQ Pham, ST Ngo - RSC advances, 2024 - pubs.rsc.org
The aggregation of amyloid beta (Aβ) peptides is associated with the development of
Alzheimer's disease (AD). However, there has been a growing belief that the oligomerization …

Dimerization of the Aβ42 under the Influence of the Gold Nanoparticle: A REMD Study

QM Thai, NT Tung, D Do Thi Mai… - The Journal of Physical …, 2024 - ACS Publications
Advances in Alzheimer's disease (AD) are related to the oligomerization of Amyloid β (Aβ)
peptides. Therefore, alteration of the process can prevent AD. We investigated the Aβ42 …

Occurrence of Biased Conformations as Precursors of Assembly States in Fibril Elongation of Amyloid-β Fibril Variants: An In Silico Study

RB Frigori, FL Barroso da Silva… - The Journal of …, 2020 - ACS Publications
We investigate the prevalence, and so the role in the amyloidogenesis, of biased
conformations in large ensembles of monomeric forms for Aβ42 and Aβ40 that can trigger …

Etersalate prevents the formations of 6Aβ16-22 oligomer: An in silico study

ST Ngo, XC Luu, NT Nguyen, VV Vu, HTT Phung - PLoS One, 2018 - journals.plos.org
Oligomerization of amyloid beta (Aβ) peptides has been considered as the crucially
causative agent in the development of Alzheimer's disease. Etersalate, a nonsteroidal anti …

Modeling structural interconversion in Alzheimers' amyloid beta peptide with classical and intrinsically disordered protein force fields

KY Wu, D Doan, M Medrano… - Journal of Biomolecular …, 2022 - Taylor & Francis
A comprehensive understanding of the aggregation mechanism in amyloid beta 42 (Aβ42)
peptide is imperative for developing therapeutic drugs to prevent or treat Alzheimer's …

Application of a transparent window vibrational probe (azido probe) to the structural dynamics of model dipeptides and amyloid β-peptide

K Cai, J Liu, Y Liu, F Chen, G Yan, H Lin - Spectrochimica Acta Part A …, 2020 - Elsevier
The azido asymmetric stretching motion is widely used for the elucidation of the intrinsic
conformational preference and folding mechanism of protein since it has strong vibrational …

Is it possible for short peptide composed of positively-and negatively-charged “hydrophilic” amino acid residue-clusters to form metastable “hydrophobic” packing?

H Nishigami, J Kang, R Terada, H Kino… - Physical Chemistry …, 2019 - pubs.rsc.org
We theoretically and experimentally analyzed a conformational ensemble of a small,
characteristic polypeptide consisting of positively-and negatively-charged amino acid …

[图书][B] Studying Multiscale Phenomena with Simulation and Experiments

M Chakraborty - 2020 - search.proquest.com
There are many events in nature, like self-assembly of peptides, which span a wide range of
time and space. While some multiscale phenomena have detrimental effects and play a …