How water's properties are encoded in its molecular structure and energies

E Brini, CJ Fennell, M Fernandez-Serra… - Chemical …, 2017 - ACS Publications
How are water's material properties encoded within the structure of the water molecule? This
is pertinent to understanding Earth's living systems, its materials, its geochemistry and …

Arginine “magic”: Guanidinium like-charge ion pairing from aqueous salts to cell penetrating peptides

M Vazdar, J Heyda, PE Mason, G Tesei… - Accounts of chemical …, 2018 - ACS Publications
It is a textbook knowledge that charges of the same polarity repel each other. For two
monovalent ions in the gas phase at a close contact this repulsive interaction amounts to …

Determination of alkali and halide monovalent ion parameters for use in explicitly solvated biomolecular simulations

IS Joung, TE Cheatham III - The journal of physical chemistry B, 2008 - ACS Publications
Alkali (Li+, Na+, K+, Rb+, and Cs+) and halide (F−, Cl−, Br−, and I−) ions play an important
role in many biological phenomena, roles that range from stabilization of biomolecular …

A generalized reaction field method for molecular dynamics simulations

IG Tironi, R Sperb, PE Smith… - The Journal of chemical …, 1995 - pubs.aip.org
Molecular dynamics simulations of ionic systems require the inclusion of long‐range
electrostatic forces. We propose an expression for the long‐range electrostatic forces based …

Computer simulations of NaCl association in polarizable water

DE Smith, LX Dang - The Journal of Chemical Physics, 1994 - pubs.aip.org
Classical molecular dynamics computer simulations have been used to investigate the
thermodynamics and kinetics of sodium chloride association in polarizable water. The …

Finite representation of an infinite bulk system: Solvent boundary potential for computer simulations

D Beglov, B Roux - The Journal of chemical physics, 1994 - pubs.aip.org
An approach is developed to obtain statistical properties similar to those of an infinite bulk
system from computer simulations of a finite cluster. A rigorous theoretical formulation is …

[BOOK][B] Molecular driving forces: statistical thermodynamics in biology, chemistry, physics, and nanoscience

K Dill, S Bromberg - 2010 - taylorfrancis.com
Molecular Driving Forces, Second Edition E-book is an introductory statistical
thermodynamics text that describes the principles and forces that drive chemical and …

Implicit solvent models

B Roux, T Simonson - Biophysical chemistry, 1999 - Elsevier
Implicit solvent models for biomolecular simulations are reviewed and their underlying
statistical mechanical basis is discussed. The fundamental quantity that implicit models seek …

Self-consistent description of a metal–water interface by the Kohn–Sham density functional theory and the three-dimensional reference interaction site model

A Kovalenko, F Hirata - The Journal of chemical physics, 1999 - pubs.aip.org
We have developed a self-consistent description of an interface between a metal and a
molecular liquid by combination of the density functional theory in the Kohn–Sham …

An integral equation to describe the solvation of polar molecules in liquid water

D Beglov, B Roux - The journal of physical chemistry B, 1997 - ACS Publications
We developed and implemented a statistical mechanical integral equation theory to
describe the hydration structure of complex molecules. The theory, which is an extension of …