Literature DB >> 16220173

Multiple high-level QM/MM reaction paths demonstrate transition-state stabilization in chorismate mutase: correlation of barrier height with transition-state stabilization.

Frederik Claeyssens1, Kara E Ranaghan, Frederick R Manby, Jeremy N Harvey, Adrian J Mulholland.   

Abstract

Multiple profiles for the reaction from chorismate to prephenate in the enzyme chorismate mutase calculated with hybrid density functional combined quantum mechanics/molecular mechanics methods (B3LYP/6-31G(d)-CHARMM27) agree well with experiment, and provide direct evidence of transition-state stabilization by this important enzyme, which is at the centre of current debates about the nature of enzyme catalysis.

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Year:  2005        PMID: 16220173     DOI: 10.1039/b508181e

Source DB:  PubMed          Journal:  Chem Commun (Camb)        ISSN: 1359-7345            Impact factor:   6.222


  13 in total

Review 1.  Multidimensional tunneling, recrossing, and the transmission coefficient for enzymatic reactions.

Authors:  Jingzhi Pu; Jiali Gao; Donald G Truhlar
Journal:  Chem Rev       Date:  2006-08       Impact factor: 60.622

2.  pH Dependence of catalysis by Pseudomonas aeruginosa isochorismate-pyruvate lyase: implications for transition state stabilization and the role of lysine 42.

Authors:  Jose Olucha; Andrew N Ouellette; Qianyi Luo; Audrey L Lamb
Journal:  Biochemistry       Date:  2011-07-22       Impact factor: 3.162

Review 3.  Biomolecular simulation and modelling: status, progress and prospects.

Authors:  Marc W van der Kamp; Katherine E Shaw; Christopher J Woods; Adrian J Mulholland
Journal:  J R Soc Interface       Date:  2008-12-06       Impact factor: 4.118

4.  Molecular dynamics simulation of the last step of a catalytic cycle: product release from the active site of the enzyme chorismate mutase from Mycobacterium tuberculosis.

Authors:  Alexandra Choutko; Wilfred F van Gunsteren
Journal:  Protein Sci       Date:  2012-11       Impact factor: 6.725

5.  Analysis of polarization in QM/MM modelling of biologically relevant hydrogen bonds.

Authors:  Kittusamy Senthilkumar; Jon I Mujika; Kara E Ranaghan; Frederick R Manby; Adrian J Mulholland; Jeremy N Harvey
Journal:  J R Soc Interface       Date:  2008-12-06       Impact factor: 4.118

Review 6.  Pericyclic reactions catalyzed by chorismate-utilizing enzymes.

Authors:  Audrey L Lamb
Journal:  Biochemistry       Date:  2011-08-12       Impact factor: 3.162

7.  Exploration of swapping enzymatic function between two proteins: a simulation study of chorismate mutase and isochorismate pyruvate lyase.

Authors:  Alexandra Choutko; Andreas P Eichenberger; Wilfred F van Gunsteren; Jožica Dolenc
Journal:  Protein Sci       Date:  2013-06       Impact factor: 6.725

8.  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

9.  Chemical accuracy in QM/MM calculations on enzyme-catalysed reactions.

Authors:  Adrian J Mulholland
Journal:  Chem Cent J       Date:  2007-07-05       Impact factor: 4.215

10.  Hybrid RHF/MP2 geometry optimizations with the effective fragment molecular orbital method.

Authors:  Anders S Christensen; Casper Steinmann; Dmitri G Fedorov; Jan H Jensen
Journal:  PLoS One       Date:  2014-02-18       Impact factor: 3.240

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