Hierarchical materials from high information content macromolecular building blocks: construction, dynamic interventions, and prediction

L Shao, J Ma, JL Prelesnik, Y Zhou, M Nguyen… - Chemical …, 2022 - ACS Publications
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 …

Local Molecular Field Theory for Coulomb Interactions in Aqueous Solutions

A Gao, RC Remsing, JD Weeks - The Journal of Physical …, 2023 - ACS Publications
Coulomb interactions play a crucial role in a wide array of processes in aqueous solutions
but present conceptual and computational challenges to both theory and simulations. We …

Wide range detection of C-Reactive protein with a homogeneous immunofluorimetric assay based on cooperative fluorescence quenching assisted by gold …

C Bravin, V Amendola - Biosensors and Bioelectronics, 2020 - Elsevier
Homogeneous sandwich immunofluorimetric assays are valued for the rapid, low-cost and
accurate detection of analytes in liquid phase. However, their exploitation with analytes …

Uncovering water effects in protein–ligand recognition: importance in the second hydration shell and binding kinetics

W Chen, H He, J Wang, J Wang… - Physical Chemistry …, 2023 - pubs.rsc.org
Developing a ligand with high affinity for a specific protein target is essential for drug design,
and water molecules are well known to play a key role in protein–drug recognition …

Short solvent model for ion correlations and hydrophobic association

A Gao, RC Remsing, JD Weeks - Proceedings of the …, 2020 - National Acad Sciences
Coulomb interactions play a major role in determining the thermodynamics, structure, and
dynamics of condensed-phase systems, but often present significant challenges. Computer …

Coupling Monte Carlo, variational implicit solvation, and binary level-set for simulations of biomolecular binding

Z Zhang, CG Ricci, C Fan, LT Cheng, B Li… - Journal of chemical …, 2021 - ACS Publications
We develop a hybrid approach that combines the Monte Carlo (MC) method, a variational
implicit-solvent model (VISM), and a binary level-set method for the simulation of …

[HTML][HTML] Prediction of multiple dry–wet transition pathways with a mesoscale variational approach

S Zhou, Y Zhang, LT Cheng, B Li - The Journal of Chemical Physics, 2021 - pubs.aip.org
Water fluctuates in a hydrophobic confinement, forming multiple dry and wet hydration states
through evaporation and condensation. Transitions between such states are critical to both …

Advances in Drug Discovery and Design using Computer-aided Molecular Modeling

K Singh, B Bhushan, B Singh - Current Computer-Aided Drug …, 2024 - ingentaconnect.com
Computer-aided molecular modeling is a rapidly emerging technology that is being used to
accelerate the discovery and design of new drug therapies. It involves the use of computer …

Fast iterative method for local steric Poisson–Boltzmann theories in biomolecular solvation

W Dou, M Chen, S Zhou - Computer Physics Communications, 2023 - Elsevier
This work proposes a fast iterative method for local steric Poisson–Boltzmann (PB) theories,
in which the electrostatic potential is governed by the Poisson's equation and ionic …

The calculus of boundary variations and the dielectric boundary force in the Poisson–Boltzmann theory for molecular solvation

B Li, Z Zhang, S Zhou - Journal of Nonlinear Science, 2021 - Springer
In a continuum model of the solvation of charged molecules in an aqueous solvent, the
classical Poisson–Boltzmann (PB) theory for the electrostatics of an ionic solution is …