Cargando…

Explicit Polarization: A Quantum Mechanical Framework for Developing Next Generation Force Fields

[Image: see text] Molecular mechanical force fields have been successfully used to model condensed-phase and biological systems for a half century. By means of careful parametrization, such classical force fields can be used to provide useful interpretations of experimental findings and predictions...

Descripción completa

Detalles Bibliográficos
Autores principales: Gao, Jiali, Truhlar, Donald G., Wang, Yingjie, Mazack, Michael J. M., Löffler, Patrick, Provorse, Makenzie R., Rehak, Pavel
Formato: Online Artículo Texto
Lenguaje:English
Publicado: American Chemical Society 2014
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4165456/
https://www.ncbi.nlm.nih.gov/pubmed/25098651
http://dx.doi.org/10.1021/ar5002186
_version_ 1782335104266272768
author Gao, Jiali
Truhlar, Donald G.
Wang, Yingjie
Mazack, Michael J. M.
Löffler, Patrick
Provorse, Makenzie R.
Rehak, Pavel
author_facet Gao, Jiali
Truhlar, Donald G.
Wang, Yingjie
Mazack, Michael J. M.
Löffler, Patrick
Provorse, Makenzie R.
Rehak, Pavel
author_sort Gao, Jiali
collection PubMed
description [Image: see text] Molecular mechanical force fields have been successfully used to model condensed-phase and biological systems for a half century. By means of careful parametrization, such classical force fields can be used to provide useful interpretations of experimental findings and predictions of certain properties. Yet, there is a need to further improve computational accuracy for the quantitative prediction of biomolecular interactions and to model properties that depend on the wave functions and not just the energy terms. A new strategy called explicit polarization (X-Pol) has been developed to construct the potential energy surface and wave functions for macromolecular and liquid-phase simulations on the basis of quantum mechanics rather than only using quantum mechanical results to fit analytic force fields. In this spirit, this approach is called a quantum mechanical force field (QMFF). X-Pol is a general fragment method for electronic structure calculations based on the partition of a condensed-phase or macromolecular system into subsystems (“fragments”) to achieve computational efficiency. Here, intrafragment energy and the mutual electronic polarization of interfragment interactions are treated explicitly using quantum mechanics. X-Pol can be used as a general, multilevel electronic structure model for macromolecular systems, and it can also serve as a new-generation force field. As a quantum chemical model, a variational many-body (VMB) expansion approach is used to systematically improve interfragment interactions, including exchange repulsion, charge delocalization, dispersion, and other correlation energies. As a quantum mechanical force field, these energy terms are approximated by empirical functions in the spirit of conventional molecular mechanics. This Account first reviews the formulation of X-Pol, in the full variationally correct version, in the faster embedded version, and with systematic many-body improvements. We discuss illustrative examples involving water clusters (which show the power of two-body corrections), ethylmethylimidazolium acetate ionic liquids (which reveal that the amount of charge transfer between anion and cation is much smaller than what has been assumed in some classical simulations), and a solvated protein in aqueous solution (which shows that the average charge distribution of carbonyl groups along the polypeptide chain depends strongly on their position in the sequence, whereas they are fixed in most classical force fields). The development of QMFFs also offers an opportunity to extend the accuracy of biochemical simulations to areas where classical force fields are often insufficient, especially in the areas of spectroscopy, reactivity, and enzyme catalysis.
format Online
Article
Text
id pubmed-4165456
institution National Center for Biotechnology Information
language English
publishDate 2014
publisher American Chemical Society
record_format MEDLINE/PubMed
spelling pubmed-41654562015-08-06 Explicit Polarization: A Quantum Mechanical Framework for Developing Next Generation Force Fields Gao, Jiali Truhlar, Donald G. Wang, Yingjie Mazack, Michael J. M. Löffler, Patrick Provorse, Makenzie R. Rehak, Pavel Acc Chem Res [Image: see text] Molecular mechanical force fields have been successfully used to model condensed-phase and biological systems for a half century. By means of careful parametrization, such classical force fields can be used to provide useful interpretations of experimental findings and predictions of certain properties. Yet, there is a need to further improve computational accuracy for the quantitative prediction of biomolecular interactions and to model properties that depend on the wave functions and not just the energy terms. A new strategy called explicit polarization (X-Pol) has been developed to construct the potential energy surface and wave functions for macromolecular and liquid-phase simulations on the basis of quantum mechanics rather than only using quantum mechanical results to fit analytic force fields. In this spirit, this approach is called a quantum mechanical force field (QMFF). X-Pol is a general fragment method for electronic structure calculations based on the partition of a condensed-phase or macromolecular system into subsystems (“fragments”) to achieve computational efficiency. Here, intrafragment energy and the mutual electronic polarization of interfragment interactions are treated explicitly using quantum mechanics. X-Pol can be used as a general, multilevel electronic structure model for macromolecular systems, and it can also serve as a new-generation force field. As a quantum chemical model, a variational many-body (VMB) expansion approach is used to systematically improve interfragment interactions, including exchange repulsion, charge delocalization, dispersion, and other correlation energies. As a quantum mechanical force field, these energy terms are approximated by empirical functions in the spirit of conventional molecular mechanics. This Account first reviews the formulation of X-Pol, in the full variationally correct version, in the faster embedded version, and with systematic many-body improvements. We discuss illustrative examples involving water clusters (which show the power of two-body corrections), ethylmethylimidazolium acetate ionic liquids (which reveal that the amount of charge transfer between anion and cation is much smaller than what has been assumed in some classical simulations), and a solvated protein in aqueous solution (which shows that the average charge distribution of carbonyl groups along the polypeptide chain depends strongly on their position in the sequence, whereas they are fixed in most classical force fields). The development of QMFFs also offers an opportunity to extend the accuracy of biochemical simulations to areas where classical force fields are often insufficient, especially in the areas of spectroscopy, reactivity, and enzyme catalysis. American Chemical Society 2014-08-06 2014-09-16 /pmc/articles/PMC4165456/ /pubmed/25098651 http://dx.doi.org/10.1021/ar5002186 Text en Copyright © 2014 American Chemical Society Terms of Use (http://pubs.acs.org/page/policy/authorchoice_termsofuse.html)
spellingShingle Gao, Jiali
Truhlar, Donald G.
Wang, Yingjie
Mazack, Michael J. M.
Löffler, Patrick
Provorse, Makenzie R.
Rehak, Pavel
Explicit Polarization: A Quantum Mechanical Framework for Developing Next Generation Force Fields
title Explicit Polarization: A Quantum Mechanical Framework for Developing Next Generation Force Fields
title_full Explicit Polarization: A Quantum Mechanical Framework for Developing Next Generation Force Fields
title_fullStr Explicit Polarization: A Quantum Mechanical Framework for Developing Next Generation Force Fields
title_full_unstemmed Explicit Polarization: A Quantum Mechanical Framework for Developing Next Generation Force Fields
title_short Explicit Polarization: A Quantum Mechanical Framework for Developing Next Generation Force Fields
title_sort explicit polarization: a quantum mechanical framework for developing next generation force fields
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4165456/
https://www.ncbi.nlm.nih.gov/pubmed/25098651
http://dx.doi.org/10.1021/ar5002186
work_keys_str_mv AT gaojiali explicitpolarizationaquantummechanicalframeworkfordevelopingnextgenerationforcefields
AT truhlardonaldg explicitpolarizationaquantummechanicalframeworkfordevelopingnextgenerationforcefields
AT wangyingjie explicitpolarizationaquantummechanicalframeworkfordevelopingnextgenerationforcefields
AT mazackmichaeljm explicitpolarizationaquantummechanicalframeworkfordevelopingnextgenerationforcefields
AT lofflerpatrick explicitpolarizationaquantummechanicalframeworkfordevelopingnextgenerationforcefields
AT provorsemakenzier explicitpolarizationaquantummechanicalframeworkfordevelopingnextgenerationforcefields
AT rehakpavel explicitpolarizationaquantummechanicalframeworkfordevelopingnextgenerationforcefields