Literature DB >> 29883118

Toward Accurate QM/MM Reaction Barriers with Large QM Regions Using Domain Based Pair Natural Orbital Coupled Cluster Theory.

Giovanni Bistoni1, Iakov Polyak1, Manuel Sparta1, Walter Thiel1, Frank Neese1.   

Abstract

The hydroxylation reaction catalyzed by p-hydroxybenzoate hydroxylase and the Baeyer-Villiger reaction catalyzed by cyclohexanone monooxygenase are investigated by means of quantum mechanical/molecular mechanical (QM/MM) calculations at different levels of QM theory. The geometries of the stationary points along the reaction profile are obtained from QM/MM geometry optimizations, in which the QM region is treated by density functional theory (DFT). Relative energies are determined from single-point QM/MM calculations using the domain-based local pair natural orbital coupled cluster DLPNO-CCSD(T) method as QM component. The results are compared with single-point DFT/MM energies obtained using popular density functionals and with available experimental and computational data. It is found that the choice of the QM method strongly affects the computed energy profiles for these reactions. Different density functionals provide qualitatively different energy barriers (variations of the order of 10 kcal/mol in both reactions), thus limiting the confidence in DFT/MM computational predictions of energy profiles. On the other hand, the use of the DLPNO-CCSD(T) method in conjunction with large QM regions and basis sets makes it possible to achieve high accuracy. A critical discussion of all the technical aspects of the calculations is given with the aim of aiding computational chemists in the application of the DLPNO-CCSD(T) methodology in QM/MM calculations.

Year:  2018        PMID: 29883118     DOI: 10.1021/acs.jctc.8b00348

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  4 in total

1.  Hydroxyl Radical-Coupled Electron-Transfer Mechanism of Flavin-Dependent Hydroxylases.

Authors:  Sara E Tweedy; Attabey Rodríguez Benítez; Alison R H Narayan; Paul M Zimmerman; Charles L Brooks; Troy Wymore
Journal:  J Phys Chem B       Date:  2019-09-18       Impact factor: 2.991

2.  Calculation of Metallocene Ionization Potentials via Auxiliary Field Quantum Monte Carlo: Toward Benchmark Quantum Chemistry for Transition Metals.

Authors:  Benjamin Rudshteyn; John L Weber; Dilek Coskun; Pierre A Devlaminck; Shiwei Zhang; David R Reichman; James Shee; Richard A Friesner
Journal:  J Chem Theory Comput       Date:  2022-04-04       Impact factor: 6.578

3.  New insights into the catalytic mechanism of the SARS-CoV-2 main protease: an ONIOM QM/MM approach.

Authors:  Henrique S Fernandes; Sérgio F Sousa; Nuno M F S A Cerqueira
Journal:  Mol Divers       Date:  2021-06-24       Impact factor: 3.364

4.  Local Energy Decomposition of Open-Shell Molecular Systems in the Domain-Based Local Pair Natural Orbital Coupled Cluster Framework.

Authors:  Ahmet Altun; Masaaki Saitow; Frank Neese; Giovanni Bistoni
Journal:  J Chem Theory Comput       Date:  2019-02-18       Impact factor: 6.006

  4 in total

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