Literature DB >> 28910099

Classical Force Fields Tailored for QM Applications: Is It Really a Feasible Strategy?

Oliviero Andreussi1,2, Ingrid G Prandi3, Marco Campetella3, Giacomo Prampolini4, Benedetta Mennucci3.   

Abstract

Classical molecular dynamics is more and more often coupled to quantum mechanical based techniques as a statistical tool to sample configurations of molecular systems embedded in complex environments. Nonetheless, the classical potentials describing the molecular systems are seldom parametrized to reproduce electronic processes, such as electronic excitations, which are instead very sensitive to the underlining description of the molecular structure. Here, we analyze the challenging case of the peridinin molecule, a natural apocarotenoid responsible for the light-harvesting process in the PCP antenna protein of dinoflagellates. Ground-state structural and vibrational properties, as well as electronic transitions of the pigment are studied by means of quantum-mechanical static and dynamic calculations. Thereafter, classical molecular dynamics simulations are performed with a number of different force-fields, ranging from a popular, general purpose one to refined potentials of increasing level of complexity. From the comparison of classical results with their quantum mechanical counterparts, it appears that, while very poor results are obtained from standard transferrable force-fields, specifically tuned potentials are able to correctly characterize most of the structural and vibrational features of the pigment. Nonetheless, only an advanced parametrization technique is able to give a semiquantitative description of the coupling between vibrations and electronic excitations, thus suggesting that the use of classical MD in combination of QM calculations for the study of photoinduced processes, albeit possible, should be considered with care.

Entities:  

Year:  2017        PMID: 28910099     DOI: 10.1021/acs.jctc.7b00777

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


  6 in total

1.  Towards the description of charge transfer states in solubilised LHCII using subsystem DFT.

Authors:  Souloke Sen; Lucas Visscher
Journal:  Photosynth Res       Date:  2022-08-21       Impact factor: 3.429

2.  QM/MM Simulations with the Gaussian Electrostatic Model: A Density-based Polarizable Potential.

Authors:  Hatice Gökcan; Eric Kratz; Thomas A Darden; Jean-Philip Piquemal; G Andrés Cisneros
Journal:  J Phys Chem Lett       Date:  2018-05-23       Impact factor: 6.475

3.  Quantum Chemical Modeling of the Photoinduced Activity of Multichromophoric Biosystems.

Authors:  Francesco Segatta; Lorenzo Cupellini; Marco Garavelli; Benedetta Mennucci
Journal:  Chem Rev       Date:  2019-07-05       Impact factor: 60.622

Review 4.  Could Quantum Mechanical Properties Be Reflected on Classical Molecular Dynamics? The Case of Halogenated Organic Compounds of Biological Interest.

Authors:  Lucas de Azevedo Santos; Ingrid G Prandi; Teodorico C Ramalho
Journal:  Front Chem       Date:  2019-12-13       Impact factor: 5.221

5.  Iron's Wake: The Performance of Quantum Mechanical-Derived Versus General-Purpose Force Fields Tested on a Luminescent Iron Complex.

Authors:  Valentin Diez-Cabanes; Giacomo Prampolini; Antonio Francés-Monerris; Antonio Monari; Mariachiara Pastore
Journal:  Molecules       Date:  2020-07-06       Impact factor: 4.411

6.  Comprehensive virtual screening of 4.8 k flavonoids reveals novel insights into allosteric inhibition of SARS-CoV-2 MPRO.

Authors:  Gabriel Jiménez-Avalos; A Paula Vargas-Ruiz; Nicolás E Delgado-Pease; Gustavo E Olivos-Ramirez; Patricia Sheen; Manolo Fernández-Díaz; Miguel Quiliano; Mirko Zimic
Journal:  Sci Rep       Date:  2021-07-29       Impact factor: 4.379

  6 in total

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