Electronic structure modeling of metal–organic frameworks

JL Mancuso, AM Mroz, KN Le, CH Hendon - Chemical reviews, 2020 - ACS Publications
Owing to their molecular building blocks, yet highly crystalline nature, metal–organic
frameworks (MOFs) sit at the interface between molecule and material. Their diverse …

[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 …

Theory and simulation of the ultrafast double-bond isomerization of biological chromophores

S Gozem, HL Luk, I Schapiro, M Olivucci - Chemical reviews, 2017 - ACS Publications
Ultrafast processes in light-absorbing proteins have been implicated in the primary step in
the light-to-energy conversion and the initialization of photoresponsive biological functions …

The Amber biomolecular simulation programs

DA Case, TE Cheatham III, T Darden… - Journal of …, 2005 - Wiley Online Library
We describe the development, current features, and some directions for future development
of the Amber package of computer programs. This package evolved from a program that was …

CHARMM: the biomolecular simulation program

BR Brooks, CL Brooks III… - Journal of …, 2009 - Wiley Online Library
Abstract CHARMM (Chemistry at HARvard Molecular Mechanics) is a highly versatile and
widely used molecular simulation program. It has been developed over the last three …

QM/MM methods for biomolecular systems

HM Senn, W Thiel - Angewandte Chemie International Edition, 2009 - Wiley Online Library
Two are better than one: Quantum mechanics/molecular mechanics (QM/MM) methods are
the state‐of‐the‐art computational technique for treating reactive and other “electronic” …

P450 Enzymes: Their Structure, Reactivity, and Selectivity Modeled by QM/MM Calculations

S Shaik, S Cohen, Y Wang, H Chen, D Kumar… - Chemical …, 2010 - ACS Publications
The introduction of oxygen into biochemical processes has brought about an evolutionary
leap in the history of life, whereby many organisms have evolved to use oxygen as part of …

QM/MM: what have we learned, where are we, and where do we go from here?

H Lin, DG Truhlar - Theoretical Chemistry Accounts, 2007 - Springer
This paper briefly reviews the current status of the most popular methods for combined
quantum mechanical/molecular mechanical (QM/MM) calculations, including their …

Hybrid models for combined quantum mechanical and molecular mechanical approaches

D Bakowies, W Thiel - The Journal of Physical Chemistry, 1996 - ACS Publications
A hierarchy of three models for combined quantum mechanical (QM) and molecular
mechanical (MM) approaches is presented. They simplify the QM description of large …

Theoretical perspective on the structure and mechanism of cytochrome P450 enzymes

S Shaik, D Kumar, SP de Visser, A Altun… - Chemical …, 2005 - ACS Publications
Cytochrome P450 is one of the most versatile enzymes in nature. 1 It uses dioxygen and two
reducing equivalents to catalyze a great variety of stereospecific and regioselective oxygen …