Water dynamics in the hydration shells of biomolecules

D Laage, T Elsaesser, JT Hynes - Chemical Reviews, 2017 - ACS Publications
The structure and function of biomolecules are strongly influenced by their hydration shells.
Structural fluctuations and molecular excitations of hydrating water molecules cover a broad …

Cell theory, intrinsically disordered proteins, and the physics of the origin of life

VV Matveev - Progress in biophysics and molecular biology, 2019 - Elsevier
Cell theory, as formulated by Theodor Schwann in 1839, introduced the idea that the cell is
the main structural unit of living nature. Later, in solving the problem of cell multiplication …

Dynamics of hydration water around native and misfolded α-lactalbumin

ZF Brotzakis, CCM Groot… - The Journal of …, 2016 - ACS Publications
As water is an essential ingredient in protein structure, dynamics, and functioning,
knowledge of its behavior near proteins is crucial. We investigate water dynamics around …

On the coupling between the dynamics of protein and water

Y Gavrilov, JD Leuchter, Y Levy - Physical Chemistry Chemical Physics, 2017 - pubs.rsc.org
Interactions between water and biomolecules can significantly change the former's
structural, dynamic, and thermodynamic properties relative to the bulk. Experimental …

Seeking solvation: exploring the role of protein hydration in silk gelation

PR Laity, C Holland - Molecules, 2022 - mdpi.com
The mechanism by which arthropods (eg, spiders and many insects) can produce silk fibres
from an aqueous protein (fibroin) solution has remained elusive, despite much scientific …

Exploring Heterogeneous Dynamical Environment around an Ensemble of Aβ42 Peptide Monomer Conformations

P Khatua, M Gupta… - Journal of Chemical …, 2022 - ACS Publications
Exploring the conformational properties of amyloid β (Aβ) peptides and the role of solvent
(water) in guiding the dynamical environment at their interfaces is crucial for microscopic …

Effects of Metal Ions on Aβ42 Peptide Conformations from Molecular Simulation Studies

P Khatua, S Mondal… - Journal of Chemical …, 2019 - ACS Publications
In this study, we investigate the conformational characteristics of full-length Aβ42 peptide
monomers in the presence of Na+ and Zn2+ metal ions using atomistic molecular dynamics …

Dynamic entity formed by protein and its hydration water

Y Ye, X Chen, J Huang, L Zheng, Q Tang, L Long… - Physical Review …, 2024 - APS
The interaction between protein and water plays a pivotal role in shaping the structure,
dynamics, and function of biomacromolecules. A comprehensive understanding of this …

Dynamical crossover of water confined within the amphiphilic nanocores of aggregated amyloid β peptides

P Khatua, S Bandyopadhyay - Physical Chemistry Chemical Physics, 2018 - pubs.rsc.org
It is believed that the self-assembly of amyloid beta (Aβ) peptides in the brain is the cause of
Alzheimer's disease. Atomistic molecular dynamics simulations of aqueous solutions of Aβ …

Designing of RNA aptamer against DNA binding domain of the glucocorticoid receptor: A response element-based in-silico approach

T Kandasamy, B Sudhamalla… - Journal of Biomolecular …, 2022 - Taylor & Francis
Virtual screening, a conventional in-silico approach to design an RNA aptamer against
target proteins require huge RNA library containing 1010 to 1015 combination of RNA …