Literature DB >> 23704835

Polarized Molecular Orbital Model Chemistry 3. The PMO Method Extended to Organic Chemistry.

Miho Isegawa1, Luke Fiedler, Hannah R Leverentz, Yingjie Wang, Santhanamoorthi Nachimuthu, Jiali Gao, Donald G Truhlar.   

Abstract

The polarized molecular orbital (PMO) method, a neglect-of-diatomic-differential-overlap (NDDO) semiempirical molecular orbital method previously parameterized for systems composed of O and H, is here extended to carbon. We modified the formalism and optimized all the parameters in the PMO Hamiltonian by using a genetic algorithm and a database containing both electrostatic and energetic properties; the new parameter set is called PMO2. The quality of the resulting predictions is compared to results obtained by previous NDDO semiempirical molecular orbital methods, both including and excluding dispersion terms. We also compare the PMO2 properties to SCC-DFTB calculations. Within the class of semiempirical molecular orbital methods, the PMO2 method is found to be especially accurate for polarizabilities, atomization energies, proton transfer energies, noncovalent complexation energies, and chemical reaction barrier heights and to have good across-the-board accuracy for a range of other properties, including dipole moments, partial atomic charges, and molecular geometries.

Entities:  

Year:  2013        PMID: 23704835      PMCID: PMC3658842          DOI: 10.1021/ct300509d

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


  26 in total

1.  Dispersion corrections to density functionals for water aromatic interactions.

Authors:  Urs Zimmerli; Michele Parrinello; Petros Koumoutsakos
Journal:  J Chem Phys       Date:  2004-02-08       Impact factor: 3.488

2.  Charge Model 5: An Extension of Hirshfeld Population Analysis for the Accurate Description of Molecular Interactions in Gaseous and Condensed Phases.

Authors:  Aleksandr V Marenich; Steven V Jerome; Christopher J Cramer; Donald G Truhlar
Journal:  J Chem Theory Comput       Date:  2012-02-03       Impact factor: 6.006

3.  Semi-empirical molecular orbital methods including dispersion corrections for the accurate prediction of the full range of intermolecular interactions in biomolecules.

Authors:  Jonathan P McNamara; Ian H Hillier
Journal:  Phys Chem Chem Phys       Date:  2007-03-22       Impact factor: 3.676

4.  DFTB+, a sparse matrix-based implementation of the DFTB method.

Authors:  B Aradi; B Hourahine; Th Frauenheim
Journal:  J Phys Chem A       Date:  2007-06-14       Impact factor: 2.781

5.  Polarized Molecular Orbital Model Chemistry. I. Ab Initio Foundations.

Authors:  Luke Fiedler; Jiali Gao; Donald G Truhlar
Journal:  J Chem Theory Comput       Date:  2011-03-03       Impact factor: 6.006

6.  Polarized Molecular Orbital Model Chemistry. II. The PMO Method.

Authors:  Peng Zhang; Luke Fiedler; Hannah R Leverentz; Donald G Truhlar; Jiali Gao
Journal:  J Chem Theory Comput       Date:  2011-04-12       Impact factor: 6.006

7.  Accurate description of van der Waals complexes by density functional theory including empirical corrections.

Authors:  Stefan Grimme
Journal:  J Comput Chem       Date:  2004-09       Impact factor: 3.376

8.  An Efficient a Posteriori Treatment for Dispersion Interaction in Density-Functional-Based Tight Binding.

Authors:  Lyuben Zhechkov; Thomas Heine; Serguei Patchkovskii; Gotthard Seifert; Helio A Duarte
Journal:  J Chem Theory Comput       Date:  2005-09       Impact factor: 6.006

9.  Structure of isolated tryptophyl-glycine dipeptide and tryptophyl-glycyl-glycine tripeptide: ab initio SCC-DFTB-D molecular dynamics simulations and high-level correlated ab initio quantum chemical calculations.

Authors:  Haydee Valdés; David Reha; Pavel Hobza
Journal:  J Phys Chem B       Date:  2006-03-30       Impact factor: 2.991

10.  Benchmarking Semiempirical Methods for Thermochemistry, Kinetics, and Noncovalent Interactions: OMx Methods Are Almost As Accurate and Robust As DFT-GGA Methods for Organic Molecules.

Authors:  Martin Korth; Walter Thiel
Journal:  J Chem Theory Comput       Date:  2011-08-16       Impact factor: 6.006

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  8 in total

1.  Quantum mechanical force field for water with explicit electronic polarization.

Authors:  Jaebeom Han; Michael J M Mazack; Peng Zhang; Donald G Truhlar; Jiali Gao
Journal:  J Chem Phys       Date:  2013-08-07       Impact factor: 3.488

Review 2.  Semiempirical Quantum Mechanical Methods for Noncovalent Interactions for Chemical and Biochemical Applications.

Authors:  Anders S Christensen; Tomáš Kubař; Qiang Cui; Marcus Elstner
Journal:  Chem Rev       Date:  2016-04-13       Impact factor: 60.622

3.  Improving intermolecular interactions in DFTB3 using extended polarization from chemical-potential equalization.

Authors:  Anders S Christensen; Marcus Elstner; Qiang Cui
Journal:  J Chem Phys       Date:  2015-08-28       Impact factor: 3.488

4.  Quantum mechanical force field for hydrogen fluoride with explicit electronic polarization.

Authors:  Michael J M Mazack; Jiali Gao
Journal:  J Chem Phys       Date:  2014-05-28       Impact factor: 3.488

5.  Doubly Polarized QM/MM with Machine Learning Chaperone Polarizability.

Authors:  Bryant Kim; Yihan Shao; Jingzhi Pu
Journal:  J Chem Theory Comput       Date:  2021-11-01       Impact factor: 6.578

Review 6.  Enhanced semiempirical QM methods for biomolecular interactions.

Authors:  Nusret Duygu Yilmazer; Martin Korth
Journal:  Comput Struct Biotechnol J       Date:  2015-02-28       Impact factor: 7.271

7.  The PM6-FGC Method: Improved Corrections for Amines and Amides.

Authors:  Martiño Ríos-García; Berta Fernández; Jesús Rodríguez-Otero; Enrique M Cabaleiro-Lago; Saulo A Vázquez
Journal:  Molecules       Date:  2022-03-03       Impact factor: 4.411

8.  Explicit polarization: a quantum mechanical framework for developing next generation force fields.

Authors:  Jiali Gao; Donald G Truhlar; Yingjie Wang; Michael J M Mazack; Patrick Löffler; Makenzie R Provorse; Pavel Rehak
Journal:  Acc Chem Res       Date:  2014-08-06       Impact factor: 22.384

  8 in total

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