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2014 ; 4
(5
): 422-435
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Quantum and Molecular Mechanical (QM/MM) Monte Carlo Techniques for Modeling
Condensed-Phase Reactions
#MMPMID25431625
Acevedo O
; Jorgensen WL
Wiley Interdiscip Rev Comput Mol Sci
2014[Sep]; 4
(5
): 422-435
PMID25431625
show ga
A recent review (Acc. Chem. Res. 2010, 43:142-151) examined our use and
development of a combined quantum and molecular mechanical (QM/MM) technique for
modelling organic and enzymatic reactions. Advances included the PDDG/PM3
semiempirical QM (SQM) method, computation of multi-dimensional potentials of
mean force (PMF), incorporation of on-the-fly QM in Monte Carlo simulations, and
a polynomial quadrature method for rapidly treating proton-transfer reactions.
The current article serves as a follow up on our progress. Highlights include new
reactions, alternative SQM methods, a polarizable OPLS force field, and novel
solvent environments, e.g., "on water" and room temperature ionic liquids. The
methodology is strikingly accurate across a wide range of condensed-phase and
antibody-catalyzed reactions including substitution, decarboxylation,
elimination, isomerization, and pericyclic classes. Comparisons are made to
systems treated with continuum-based solvents and ab initio or density functional
theory (DFT) methods. Overall, the QM/MM methodology provides detailed
characterization of reaction paths, proper configurational sampling, several
advantages over implicit solvent models, and a reasonable computational cost.