Amyloid oligomers: A joint experimental/computational perspective on Alzheimer's disease, Parkinson's disease, type II diabetes, and amyotrophic lateral sclerosis

PH Nguyen, A Ramamoorthy, BR Sahoo… - Chemical …, 2021 - ACS Publications
Protein misfolding and aggregation is observed in many amyloidogenic diseases affecting
either the central nervous system or a variety of peripheral tissues. Structural and dynamic …

[HTML][HTML] Antibody stability: A key to performance-Analysis, influences and improvement

H Ma, C Ó'Fágáin, R O'Kennedy - Biochimie, 2020 - Elsevier
An antibody's stability greatly influences its performance (ie its specificity and affinity). Thus,
stability is a major issue for researchers and manufacturers, especially with the increasing …

Enhanced binding of SARS-CoV-2 spike protein to receptor by distal polybasic cleavage sites

B Qiao, M Olvera de la Cruz - ACS nano, 2020 - ACS Publications
The receptor-binding domain (RBD) of the SARS-CoV-2 spike protein plays a crucial role in
binding the human cell receptor ACE2 that is required for viral entry. Many studies have …

Understanding hydrophobic effects: Insights from water density fluctuations

NB Rego, AJ Patel - Annual Review of Condensed Matter …, 2022 - annualreviews.org
The aversion of hydrophobic solutes for water drives diverse interactions and assemblies
across materials science, biology, and beyond. Here, we review the theoretical …

Observation of ice-like water layers at an aqueous protein surface

K Meister, S Strazdaite, AL DeVries… - Proceedings of the …, 2014 - National Acad Sciences
We study the properties of water at the surface of an antifreeze protein with femtosecond
surface sum frequency generation spectroscopy. We find clear evidence for the presence of …

Water follows polar and nonpolar protein surface domains

B Qiao, F Jiménez-Ángeles… - Proceedings of the …, 2019 - National Acad Sciences
The conformation of water around proteins is of paramount importance, as it determines
protein interactions. Although the average water properties around the surface of proteins …

[HTML][HTML] The role of water in the primary nucleation of protein amyloid aggregation

JD Camino, P Gracia, N Cremades - Biophysical Chemistry, 2021 - Elsevier
The understanding of the complex conformational landscape of amyloid aggregation and its
modulation by relevant physicochemical and cellular factors is a prerequisite for elucidating …

Spatially heterogeneous surface water diffusivity around structured protein surfaces at equilibrium

R Barnes, S Sun, Y Fichou, FW Dahlquist… - Journal of the …, 2017 - ACS Publications
Hydration water on the surface of a protein is thought to mediate the thermodynamics of
protein–ligand interactions. For hydration water to play a role beyond modulating global …

Folding free energy landscape of ordered and intrinsically disordered proteins

SH Chong, S Ham - Scientific reports, 2019 - nature.com
Folding funnel is the essential concept of the free energy landscape for ordered proteins.
How does this concept apply to intrinsically disordered proteins (IDPs)? Here, we address …

MLSolvA: solvation free energy prediction from pairwise atomistic interactions by machine learning

H Lim, YJ Jung - Journal of Cheminformatics, 2021 - Springer
Recent advances in machine learning technologies and their applications have led to the
development of diverse structure–property relationship models for crucial chemical …