Applications of large-scale density functional theory in biology

DJ Cole, NDM Hine - Journal of Physics: Condensed Matter, 2016 - iopscience.iop.org
Density functional theory (DFT) has become a routine tool for the computation of electronic
structure in the physics, materials and chemistry fields. Yet the application of traditional DFT …

[HTML][HTML] The ONETEP linear-scaling density functional theory program

JCA Prentice, J Aarons, JC Womack… - The Journal of …, 2020 - pubs.aip.org
We present an overview of the onetep program for linear-scaling density functional theory
(DFT) calculations with large basis set (plane-wave) accuracy on parallel computers. The …

First-principles calculations of hybrid inorganic–organic interfaces: from state-of-the-art to best practice

OT Hofmann, E Zojer, L Hörmann, A Jeindl… - Physical Chemistry …, 2021 - pubs.rsc.org
The computational characterization of inorganic–organic hybrid interfaces is arguably one of
the technically most challenging applications of density functional theory. Due to the …

Predicting solvatochromic shifts and colours of a solvated organic dye: The example of nile red

TJ Zuehlsdorff, PD Haynes, MC Payne… - The Journal of Chemical …, 2017 - pubs.aip.org
The solvatochromic shift, as well as the change in colour of the simple organic dye nile red,
is studied in two polar and two non-polar solvents in the context of large-scale time …

Electrostatics of solvated systems in periodic boundary conditions

O Andreussi, N Marzari - Physical Review B, 2014 - APS
Continuum solvation methods can provide an accurate and inexpensive embedding of
quantum simulations in liquid or complex dielectric environments. Notwithstanding a long …

Role of spin in the calculation of Hubbard and Hund's parameters from first principles

EB Linscott, DJ Cole, MC Payne, DD O'Regan - Physical Review B, 2018 - APS
The density functional theory (DFT)+ U method is a pragmatic and effective approach for
calculating the ground-state properties of strongly correlated systems, and linear-response …

Solvent effects on electronic excitations of an organic chromophore

TJ Zuehlsdorff, PD Haynes, F Hanke… - Journal of Chemical …, 2016 - ACS Publications
In this work we study the solvatochromic shift of a selected low-energy excited state of
alizarin in water by using a linear-scaling implementation of large-scale time-dependent …

Reconciling work functions and adsorption enthalpies for implicit solvent models: a Pt (111)/water interface case study

G Bramley, MT Nguyen, VA Glezakou… - Journal of chemical …, 2020 - ACS Publications
Implicit solvent models are a computationally efficient method of representing solid/liquid
interfaces prevalent in electrocatalysis, energy storage, and materials science. However …

[HTML][HTML] TINKTEP: A fully self-consistent, mutually polarizable QM/MM approach based on the AMOEBA force field

J Dziedzic, Y Mao, Y Shao, J Ponder… - The Journal of …, 2016 - pubs.aip.org
We present a novel quantum mechanical/molecular mechanics (QM/MM) approach in which
a quantum subsystem is coupled to a classical subsystem described by the AMOEBA …

Electrostatic considerations affecting the calculated HOMO–LUMO gap in protein molecules

G Lever, DJ Cole, NDM Hine, PD Haynes… - Journal of Physics …, 2013 - iopscience.iop.org
A detailed study of energy differences between the highest occupied and lowest unoccupied
molecular orbitals (HOMO–LUMO gaps) in protein systems and water clusters is presented …