Literature DB >> 21116485

Proton Transfer Studied Using a Combined Ab Initio Reactive Potential Energy Surface with Quantum Path Integral Methodology.

Kim F Wong1, Jason L Sonnenberg, Francesco Paesani, Takeshi Yamamoto, Jiří Vaníček, Wei Zhang, H Bernhard Schlegel, David A Case, Thomas E Cheatham, William H Miller, Gregory A Voth.   

Abstract

The rates of intramolecular proton transfer are calculated on a full-dimensional reactive electronic potential energy surface that incorporates high level ab initio calculations along the reaction path and by using classical Transition State theory, Path-Integral Quantum Transition State Theory, and the Quantum Instanton approach. The specific example problem studied is malonaldehyde. Estimates of the kinetic isotope effect using the latter two methods are found to be in reasonable agreement with each other. Improvements and extensions of this practical, yet chemically accurate framework for the calculations of quantized, reactive dynamics are also discussed.

Entities:  

Year:  2010        PMID: 21116485      PMCID: PMC2992356          DOI: 10.1021/ct900579k

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


  27 in total

1.  Development and testing of a general amber force field.

Authors:  Junmei Wang; Romain M Wolf; James W Caldwell; Peter A Kollman; David A Case
Journal:  J Comput Chem       Date:  2004-07-15       Impact factor: 3.376

2.  CHARMM fluctuating charge force field for proteins: II protein/solvent properties from molecular dynamics simulations using a nonadditive electrostatic model.

Authors:  Sandeep Patel; Alexander D Mackerell; Charles L Brooks
Journal:  J Comput Chem       Date:  2004-09       Impact factor: 3.376

3.  Distributed Gaussian Valence Bond Surface Derived from Ab Initio Calculations.

Authors:  Jason L Sonnenberg; Kim F Wong; Gregory A Voth; H Bernhard Schlegel
Journal:  J Chem Theory Comput       Date:  2009-04-14       Impact factor: 6.006

4.  Non-Hermitian Multiconfiguration Molecular Mechanics.

Authors:  Oksana Tishchenko; Donald G Truhlar
Journal:  J Chem Theory Comput       Date:  2009-06-09       Impact factor: 6.006

5.  Empirical Valence-Bond Models for Reactive Potential Energy Surfaces Using Distributed Gaussians.

Authors:  H Bernhard Schlegel; Jason L Sonnenberg
Journal:  J Chem Theory Comput       Date:  2006-07       Impact factor: 6.006

6.  Path integral evaluation of the quantum instanton rate constant for proton transfer in a polar solvent.

Authors:  Takeshi Yamamoto; William H Miller
Journal:  J Chem Phys       Date:  2005-01-22       Impact factor: 3.488

7.  Comparison of multiple Amber force fields and development of improved protein backbone parameters.

Authors:  Viktor Hornak; Robert Abel; Asim Okur; Bentley Strockbine; Adrian Roitberg; Carlos Simmerling
Journal:  Proteins       Date:  2006-11-15

8.  Combining the nuclear-electronic orbital approach with vibronic coupling theory: calculation of the tunneling splitting for malonaldehyde.

Authors:  Anirban Hazra; Jonathan H Skone; Sharon Hammes-Schiffer
Journal:  J Chem Phys       Date:  2009-02-07       Impact factor: 3.488

9.  Full-dimensional quantum calculations of ground-state tunneling splitting of malonaldehyde using an accurate ab initio potential energy surface.

Authors:  Yimin Wang; Bastiaan J Braams; Joel M Bowman; Stuart Carter; David P Tew
Journal:  J Chem Phys       Date:  2008-06-14       Impact factor: 3.488

10.  CHARMM fluctuating charge force field for proteins: I parameterization and application to bulk organic liquid simulations.

Authors:  Sandeep Patel; Charles L Brooks
Journal:  J Comput Chem       Date:  2004-01-15       Impact factor: 3.376

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  3 in total

1.  Multiscale reactive molecular dynamics.

Authors:  Chris Knight; Gerrick E Lindberg; Gregory A Voth
Journal:  J Chem Phys       Date:  2012-12-14       Impact factor: 3.488

Review 2.  Hydrogen tunneling in enzymes and biomimetic models.

Authors:  Joshua P Layfield; Sharon Hammes-Schiffer
Journal:  Chem Rev       Date:  2013-12-20       Impact factor: 60.622

Review 3.  Kinetic isotope effects and how to describe them.

Authors:  Konstantin Karandashev; Zhen-Hao Xu; Markus Meuwly; Jiří Vaníček; Jeremy O Richardson
Journal:  Struct Dyn       Date:  2017-12-13       Impact factor: 2.920

  3 in total

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