[HTML][HTML] The ONIOM method and its applications

LW Chung, WMC Sameera, R Ramozzi… - Chemical …, 2015 - ACS Publications
The fields of theoretical and computational chemistry have come a long way since their
inception in the mid-20th century. Fifty years ago, only rudimentary approximations for very …

QM/MM methods for biological systems

HM Senn, W Thiel - Atomistic approaches in modern biology: from …, 2007 - Springer
Thirty years after the seminal contribution by Warshel and Levitt, we review the state of the
art of combined quantum-mechanics/molecular-mechanics (QM/MM) methods, with a focus …

Aqueous solvation free energies of ions and ion− water clusters based on an accurate value for the absolute aqueous solvation free energy of the proton

CP Kelly, CJ Cramer, DG Truhlar - The Journal of Physical …, 2006 - ACS Publications
Thermochemical cycles that involve p K a, gas-phase acidities, aqueous solvation free
energies of neutral species, and gas-phase clustering free energies have been used with …

Microsolvated transition state models for improved insight into chemical properties and reaction mechanisms

RB Sunoj, M Anand - Physical chemistry chemical physics, 2012 - pubs.rsc.org
Over the years, several methods have been developed to effectively represent the chemical
behavior of solutes in solvents. The environmental effects arising due to solvation can …

Recent progress in homogeneous multielectron transfer photocatalysis and artificial photosynthetic solar energy conversion

G Knör - Coordination Chemistry Reviews, 2015 - Elsevier
As a consequence of global population growth, our modern civilization is facing many
upcoming challenges such as gradually depleting energy resources, anthropogenic climate …

Theoretical studies of the active-site structure, spectroscopic and thermodynamic properties, and reaction mechanism of multicopper oxidases

L Rulíšek, U Ryde - Coordination Chemistry Reviews, 2013 - Elsevier
In this article, we review recent theoretical work that has complemented the extensive
experimental data available for the multicopper oxidases (MCO) and led to the elucidation of …

Murburn precepts for the light reaction of oxygenic photosynthesis

KM Manoj, B Nikolai, A Parashar, DA Gideon… - 2020 - osf.io
Robert Emerson's original observation (1957) that “oxygenesis occurs even with far-red light
excitation of Photosystem I” is incompatible with the extant Kok-Joliot cycle's foundation that …

Prediction of reduction potentials of copper proteins with continuum electrostatics and density functional theory

NJ Fowler, CF Blanford, J Warwicker… - … –A European Journal, 2017 - Wiley Online Library
Blue copper proteins, such as azurin, show dramatic changes in Cu2+/Cu+ reduction
potential upon mutation over the full physiological range. Hence, they have important …

Reduction Potentials and Acidity Constants of Mn Superoxide Dismutase Calculated by QM/MM Free‐Energy Methods

J Heimdal, M Kaukonen, M Srnec, L Rulíšek… - …, 2011 - Wiley Online Library
We used two theoretical methods to estimate reduction potentials and acidity constants in
Mn superoxide dismutase (MnSOD), namely combined quantum mechanical and molecular …

Atomic Resolution Crystal Structures, EXAFS, and Quantum Chemical Studies of Rusticyanin and Its Two Mutants Provide Insight into Its Unusual Properties,

ML Barrett, I Harvey, M Sundararajan, R Surendran… - Biochemistry, 2006 - ACS Publications
Rusticyanin from the extremophile Thiobacillus ferrooxidans is a blue copper protein with
unusually high redox potential and acid stability. We present the crystal structures of native …