Literature DB >> 16873125

Hydrogen tunnelling in enzyme-catalysed H-transfer reactions: flavoprotein and quinoprotein systems.

Michael J Sutcliffe1, Laura Masgrau, Anna Roujeinikova, Linus O Johannissen, Parvinder Hothi, Jaswir Basran, Kara E Ranaghan, Adrian J Mulholland, David Leys, Nigel S Scrutton.   

Abstract

It is now widely accepted that enzyme-catalysed C-H bond breakage occurs by quantum mechanical tunnelling. This paradigm shift in the conceptual framework for these reactions away from semi-classical transition state theory (TST, i.e. including zero-point energy, but with no tunnelling correction) has been driven over the recent years by experimental studies of the temperature dependence of kinetic isotope effects (KIEs) for these reactions in a range of enzymes, including the tryptophan tryptophylquinone-dependent enzymes such as methylamine dehydrogenase and aromatic amine dehydrogenase, and the flavoenzymes such as morphinone reductase and pentaerythritol tetranitrate reductase, which produced observations that are also inconsistent with the simple Bell-correction model of tunnelling. However, these data-especially, the strong temperature dependence of reaction rates and the variable temperature dependence of KIEs-are consistent with other tunnelling models (termed full tunnelling models), in which protein and/or substrate fluctuations generate a configuration compatible with tunnelling. These models accommodate substrate/protein (environment) fluctuations required to attain a configuration with degenerate nuclear quantum states and, when necessary, motion required to increase the probability of tunnelling in these states. Furthermore, tunnelling mechanisms in enzymes are supported by atomistic computational studies performed within the framework of modern TST, which incorporates quantum nuclear effects.

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Year:  2006        PMID: 16873125      PMCID: PMC1647315          DOI: 10.1098/rstb.2006.1878

Source DB:  PubMed          Journal:  Philos Trans R Soc Lond B Biol Sci        ISSN: 0962-8436            Impact factor:   6.237


  63 in total

1.  The Protein Data Bank.

Authors:  H M Berman; J Westbrook; Z Feng; G Gilliland; T N Bhat; H Weissig; I N Shindyalov; P E Bourne
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  Hydride transfer catalyzed by xylose isomerase: mechanism and quantum effects.

Authors:  Mireia Garcia-Viloca; Cristóbal Alhambra; Donald G Truhlar; Jiali Gao
Journal:  J Comput Chem       Date:  2003-01-30       Impact factor: 3.376

3.  Tunneling and coupled motion in the Escherichia coli dihydrofolate reductase catalysis.

Authors:  R Steven Sikorski; Lin Wang; Kelli A Markham; P T Ravi Rajagopalan; Stephen J Benkovic; Amnon Kohen
Journal:  J Am Chem Soc       Date:  2004-04-21       Impact factor: 15.419

Review 4.  Quantum-classical simulation methods for hydrogen transfer in enzymes: a case study of dihydrofolate reductase.

Authors:  Sharon Hammes-Schiffer
Journal:  Curr Opin Struct Biol       Date:  2004-04       Impact factor: 6.809

5.  H-tunneling in the multiple H-transfers of the catalytic cycle of morphinone reductase and in the reductive half-reaction of the homologous pentaerythritol tetranitrate reductase.

Authors:  Jaswir Basran; Richard J Harris; Michael J Sutcliffe; Nigel S Scrutton
Journal:  J Biol Chem       Date:  2003-08-26       Impact factor: 5.157

6.  Deuterium isotope effects during carbon-hydrogen bond cleavage by trimethylamine dehydrogenase. Implications for mechanism and vibrationally assisted hydrogen tunneling in wild-type and mutant enzymes.

Authors:  J Basran; M J Sutcliffe; N S Scrutton
Journal:  J Biol Chem       Date:  2001-04-13       Impact factor: 5.157

7.  Hydride transfer in liver alcohol dehydrogenase: quantum dynamics, kinetic isotope effects, and role of enzyme motion.

Authors:  S R Billeter; S P Webb; P K Agarwal; T Iordanov; S Hammes-Schiffer
Journal:  J Am Chem Soc       Date:  2001-11-14       Impact factor: 15.419

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.  Boundary conditions for the Swain-Schaad relationship as a criterion for hydrogen tunneling.

Authors:  Amnon Kohen; Jan H Jensen
Journal:  J Am Chem Soc       Date:  2002-04-17       Impact factor: 15.419

10.  Evidence that both protium and deuterium undergo significant tunneling in the reaction catalyzed by bovine serum amine oxidase.

Authors:  K L Grant; J P Klinman
Journal:  Biochemistry       Date:  1989-08-08       Impact factor: 3.162

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  21 in total

1.  Characterizing the dynamics of functionally relevant complexes of formate dehydrogenase.

Authors:  Jigar N Bandaria; Samrat Dutta; Michael W Nydegger; William Rock; Amnon Kohen; Christopher M Cheatum
Journal:  Proc Natl Acad Sci U S A       Date:  2010-09-27       Impact factor: 11.205

2.  Barrier compression and its contribution to both classical and quantum mechanical aspects of enzyme catalysis.

Authors:  Sam Hay; Linus O Johannissen; Michael J Sutcliffe; Nigel S Scrutton
Journal:  Biophys J       Date:  2010-01-06       Impact factor: 4.033

3.  Introduction. Biomolecular simulation.

Authors:  Adrian J Mulholland
Journal:  J R Soc Interface       Date:  2008-12-06       Impact factor: 4.118

Review 4.  H-transfers in Photosystem II: what can we learn from recent lessons in the enzyme community?

Authors:  Sam Hay; Nigel S Scrutton
Journal:  Photosynth Res       Date:  2008-09-03       Impact factor: 3.573

5.  13C kinetic isotope effects on the reaction of a flavin amine oxidase determined from whole molecule isotope effects.

Authors:  José R Tormos; Marina B Suarez; Paul F Fitzpatrick
Journal:  Arch Biochem Biophys       Date:  2016-11-01       Impact factor: 4.013

Review 6.  Biochemistry and theory of proton-coupled electron transfer.

Authors:  Agostino Migliore; Nicholas F Polizzi; Michael J Therien; David N Beratan
Journal:  Chem Rev       Date:  2014-04-01       Impact factor: 60.622

7.  Wide-dynamic-range kinetic investigations of deep proton tunnelling in proteins.

Authors:  Bridget Salna; Abdelkrim Benabbas; J Timothy Sage; Jasper van Thor; Paul M Champion
Journal:  Nat Chem       Date:  2016-05-30       Impact factor: 24.427

8.  A remote mutation affects the hydride transfer by disrupting concerted protein motions in thymidylate synthase.

Authors:  Zhen Wang; Thelma Abeysinghe; Janet S Finer-Moore; Robert M Stroud; Amnon Kohen
Journal:  J Am Chem Soc       Date:  2012-10-15       Impact factor: 15.419

9.  The general base in the thymidylate synthase catalyzed proton abstraction.

Authors:  Ananda K Ghosh; Zahidul Islam; Jonathan Krueger; Thelma Abeysinghe; Amnon Kohen
Journal:  Phys Chem Chem Phys       Date:  2015-12-14       Impact factor: 3.676

10.  Examination of enzymatic H-tunneling through kinetics and dynamics.

Authors:  Jigar N Bandaria; Christopher M Cheatum; Amnon Kohen
Journal:  J Am Chem Soc       Date:  2009-07-29       Impact factor: 15.419

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