Enhanced sampling methods for molecular dynamics simulations
Enhanced sampling algorithms have emerged as powerful methods to extend the utility of
molecular dynamics simulations and allow the sampling of larger portions of the …
molecular dynamics simulations and allow the sampling of larger portions of the …
Proteostasis of islet amyloid polypeptide: a molecular perspective of risk factors and protective strategies for type II diabetes
The possible link between hIAPP accumulation and β-cell death in diabetic patients has
inspired numerous studies focusing on amyloid structures and aggregation pathways of this …
inspired numerous studies focusing on amyloid structures and aggregation pathways of this …
Hierarchical materials from high information content macromolecular building blocks: construction, dynamic interventions, and prediction
Hierarchical materials that exhibit order over multiple length scales are ubiquitous in nature.
Because hierarchy gives rise to unique properties and functions, many have sought …
Because hierarchy gives rise to unique properties and functions, many have sought …
[HTML][HTML] Enhancing geometric representations for molecules with equivariant vector-scalar interactive message passing
Geometric deep learning has been revolutionizing the molecular modeling field. Despite the
state-of-the-art neural network models are approaching ab initio accuracy for molecular …
state-of-the-art neural network models are approaching ab initio accuracy for molecular …
Amyloid aggregation simulations: challenges, advances and perspectives
B Strodel - Current opinion in structural biology, 2021 - Elsevier
In amyloid aggregation diseases soluble proteins coalesce into a wide array of undesirable
structures, ranging through oligomers and prefibrillar assemblies to highly ordered amyloid …
structures, ranging through oligomers and prefibrillar assemblies to highly ordered amyloid …
Revolutionizing peptide‐based drug discovery: Advances in the post‐AlphaFold era
Peptide‐based drugs offer high specificity, potency, and selectivity. However, their inherent
flexibility and differences in conformational preferences between their free and bound states …
flexibility and differences in conformational preferences between their free and bound states …
Computational methods for exploring protein conformations
JR Allison - Biochemical Society Transactions, 2020 - portlandpress.com
Proteins are dynamic molecules that can transition between a potentially wide range of
structures comprising their conformational ensemble. The nature of these conformations and …
structures comprising their conformational ensemble. The nature of these conformations and …
[HTML][HTML] An investigation into the potential action of polyphenols against human Islet Amyloid Polypeptide aggregation in type 2 diabetes
Abstract Type 2 diabetes (T2D), a chronic metabolic disease characterized by
hyperglycemia, results in significant disease burden and financial costs globally. Whilst the …
hyperglycemia, results in significant disease burden and financial costs globally. Whilst the …
Biomaterial‐interrelated bacterial sweeper: simplified self‐assembled octapeptides with double‐layered Trp zipper induces membrane destabilization and bacterial …
Y Fang, Y Zhu, L Li, Z Lai, N Dong, A Shan - Small Methods, 2021 - Wiley Online Library
Abstract Treatment of microbial‐associated infections continues to be hampered by impaired
antibacterial efficiency and the variability in nanomedicines. Herein, an octapeptide library …
antibacterial efficiency and the variability in nanomedicines. Herein, an octapeptide library …
[HTML][HTML] Enhanced sampling without borders: on global biasing functions and how to reweight them
Molecular dynamics (MD) simulations are a powerful tool to follow the time evolution of
biomolecular motions in atomistic resolution. However, the high computational demand of …
biomolecular motions in atomistic resolution. However, the high computational demand of …