Literature DB >> 20432050

Three applications of path integrals: equilibrium and kinetic isotope effects, and the temperature dependence of the rate constant of the [1,5] sigmatropic hydrogen shift in (Z)-1,3-pentadiene.

Tomáš Zimmermann1, Jiří Vaníček.   

Abstract

Recent experiments have confirmed the importance of nuclear quantum effects even in large biomolecules at physiological temperature. Here we describe how the path integral formalism can be used to describe rigorously the nuclear quantum effects on equilibrium and kinetic properties of molecules. Specifically, we explain how path integrals can be employed to evaluate the equilibrium (EIE) and kinetic (KIE) isotope effects, and the temperature dependence of the rate constant. The methodology is applied to the [1,5] sigmatropic hydrogen shift in pentadiene. Both the KIE and the temperature dependence of the rate constant confirm the importance of tunneling and other nuclear quantum effects as well as of the anharmonicity of the potential energy surface. Moreover, previous results on the KIE were improved by using a combination of a high level electronic structure calculation within the harmonic approximation with a path integral anharmonicity correction using a lower level method.

Entities:  

Mesh:

Substances:

Year:  2010        PMID: 20432050     DOI: 10.1007/s00894-010-0711-y

Source DB:  PubMed          Journal:  J Mol Model        ISSN: 0948-5023            Impact factor:   1.810


  22 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.  Test of the quantum instanton approximation for thermal rate constants for some collinear reactions.

Authors:  Michele Ceotto; William H Miller
Journal:  J Chem Phys       Date:  2004-04-08       Impact factor: 3.488

3.  On the efficient path integral evaluation of thermal rate constants within the quantum instanton approximation.

Authors:  Takeshi Yamamoto; William H Miller
Journal:  J Chem Phys       Date:  2004-02-15       Impact factor: 3.488

4.  Simulations of the large kinetic isotope effect and the temperature dependence of the hydrogen atom transfer in lipoxygenase.

Authors:  Mats H M Olsson; Per E M Siegbahn; Arieh Warshel
Journal:  J Am Chem Soc       Date:  2004-03-10       Impact factor: 15.419

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.  Polarizable Force Fields:  History, Test Cases, and Prospects.

Authors:  Arieh Warshel; Mitsunori Kato; Andrei V Pisliakov
Journal:  J Chem Theory Comput       Date:  2007-11       Impact factor: 6.006

7.  Atomic description of an enzyme reaction dominated by proton tunneling.

Authors:  Laura Masgrau; Anna Roujeinikova; Linus O Johannissen; Parvinder Hothi; Jaswir Basran; Kara E Ranaghan; Adrian J Mulholland; Michael J Sutcliffe; Nigel S Scrutton; David Leys
Journal:  Science       Date:  2006-04-14       Impact factor: 47.728

8.  Enzyme dynamics and hydrogen tunnelling in a thermophilic alcohol dehydrogenase.

Authors:  A Kohen; R Cannio; S Bartolucci; J P Klinman
Journal:  Nature       Date:  1999-06-03       Impact factor: 49.962

9.  Origin of the temperature dependence of isotope effects in enzymatic reactions: the case of dihydrofolate reductase.

Authors:  Hanbin Liu; Arieh Warshel
Journal:  J Phys Chem B       Date:  2007-06-16       Impact factor: 2.991

Review 10.  Progress in ab initio QM/MM free-energy simulations of electrostatic energies in proteins: accelerated QM/MM studies of pKa, redox reactions and solvation free energies.

Authors:  Shina C L Kamerlin; Maciej Haranczyk; Arieh Warshel
Journal:  J Phys Chem B       Date:  2009-02-05       Impact factor: 2.991

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.