[HTML][HTML] A practical guide to biologically relevant molecular simulations with charge scaling for electronic polarization
Molecular simulations can elucidate atomistic-level mechanisms of key biological
processes, which are often hardly accessible to experiment. However, the results of the …
processes, which are often hardly accessible to experiment. However, the results of the …
Simulation and theory of ions at atmospherically relevant aqueous liquid-air interfaces
Chemistry occurring at or near the surface of aqueous droplets and thin films in the
atmosphere influences air quality and climate. Molecular dynamics simulations are …
atmosphere influences air quality and climate. Molecular dynamics simulations are …
Tinker 8: software tools for molecular design
The Tinker software, currently released as version 8, is a modular molecular mechanics and
dynamics package written primarily in a standard, easily portable dialect of Fortran 95 with …
dynamics package written primarily in a standard, easily portable dialect of Fortran 95 with …
Scaled charges for ions: An improvement but not the final word for modeling electrolytes in water
In this work, we discuss the use of scaled charges when develo** force fields for NaCl in
water. We shall develop force fields for Na+ and Cl− using the following values for the …
water. We shall develop force fields for Na+ and Cl− using the following values for the …
[HTML][HTML] Revisiting the hydration structure of aqueous Na+
A combination of theory, X-ray diffraction (XRD) and extended x-ray absorption fine structure
(EXAFS) are used to probe the hydration structure of aqueous Na+. The high spatial …
(EXAFS) are used to probe the hydration structure of aqueous Na+. The high spatial …
Accurate binding of sodium and calcium to a POPC bilayer by effective inclusion of electronic polarization
Binding affinities and stoichiometries of Na+ and Ca2+ ions to phospholipid bilayers are of
paramount significance in the properties and functionality of cellular membranes. Current …
paramount significance in the properties and functionality of cellular membranes. Current …
A holistic approach for elucidating local structure, dynamics, and speciation in molten salts with high structural disorder
To examine ion solvation, exchange, and speciation for minority components in molten salts
(MS) typically found as corrosion products, we propose a multimodal approach combining …
(MS) typically found as corrosion products, we propose a multimodal approach combining …
Effects of alkali cations and halide anions on the DOPC lipid membrane
By means of molecular dynamics simulations with an all-atom force field, we investigated the
affinities of alkali cations and halide anions for the dioleoylphosphatidylcholine lipid …
affinities of alkali cations and halide anions for the dioleoylphosphatidylcholine lipid …
Toward a first-principles framework for predicting collective properties of electrolytes
Conspectus Given the universal importance of electrolyte solutions, it is natural to expect
that we have a nearly complete understanding of the fundamental properties of these …
that we have a nearly complete understanding of the fundamental properties of these …
Spontaneous formation of KCl aggregates in biomolecular simulations: a force field issue?
Realistic all-atom simulation of biological systems requires accurate modeling of both the
biomolecules and their ionic environment. Recently, ion nucleation phenomena leading to …
biomolecules and their ionic environment. Recently, ion nucleation phenomena leading to …