Literature DB >> 28911770

Primary Deuterium Kinetic Isotope Effects From Product Yields: Rationale, Implementation, and Interpretation.

Tina L Amyes1, John P Richard2.   

Abstract

A simple and convenient method is described to determine primary deuterium kinetic isotope effects (1°DKIEs) on reactions where the hydron incorporated into the reaction product is derived from solvent water. The 1°DKIE may be obtained by 1H NMR analyses as the ratio of the yields of H- and D-labeled products from a reaction in 50:50 (v/v) HOH/DOD. The procedures for these 1H NMR analyses are reviewed. This product deuterium isotope effect (PDIE) is defined as 1/ϕEL for fractionation of hydrons between solvent and the transition state for the reaction examined. When the solvent is not the direct hydron donor, it is necessary to correct the PDIE for the fractionation factor ϕEL for partitioning of the hydron between the solvent and the direct donor EL. This method was used to determine the 1°DKIE on decarboxylation reactions catalyzed by wild-type orotidine 5'-monophosphate decarboxylase (OMPDC) and by mutants of OMPDC, and then in the determination of the 1°DKIE on the decarboxylation reaction catalyzed by 5-carboxyvanillate decarboxylase. The experimental procedures used in studies on OMPDC and the rationale for these procedures are described.
© 2017 Elsevier Inc. All rights reserved.

Entities:  

Keywords:  Decarboxylation; Enzyme catalysis; Kinetic isotope effects; Proton transfer; Reactive intermediates

Mesh:

Substances:

Year:  2017        PMID: 28911770      PMCID: PMC5638648          DOI: 10.1016/bs.mie.2017.06.043

Source DB:  PubMed          Journal:  Methods Enzymol        ISSN: 0076-6879            Impact factor:   1.600


  18 in total

1.  Anatomy of a proficient enzyme: the structure of orotidine 5'-monophosphate decarboxylase in the presence and absence of a potential transition state analog.

Authors:  B G Miller; A M Hassell; R Wolfenden; M V Milburn; S A Short
Journal:  Proc Natl Acad Sci U S A       Date:  2000-02-29       Impact factor: 11.205

2.  The crystal structure and mechanism of orotidine 5'-monophosphate decarboxylase.

Authors:  T C Appleby; C Kinsland; T P Begley; S E Ealick
Journal:  Proc Natl Acad Sci U S A       Date:  2000-02-29       Impact factor: 11.205

3.  A simple method to determine kinetic deuterium isotope effects provides evidence that proton transfer to carbon proceeds over and not through the reaction barrier.

Authors:  Wing-Yin Tsang; John P Richard
Journal:  J Am Chem Soc       Date:  2007-08-04       Impact factor: 15.419

4.  Product deuterium isotope effect for orotidine 5'-monophosphate decarboxylase: evidence for the existence of a short-lived carbanion intermediate.

Authors:  Krisztina Toth; Tina L Amyes; Bryant M Wood; Kui Chan; John A Gerlt; John P Richard
Journal:  J Am Chem Soc       Date:  2007-10-05       Impact factor: 15.419

5.  Formation and stability of a vinyl carbanion at the active site of orotidine 5'-monophosphate decarboxylase: pKa of the C-6 proton of enzyme-bound UMP.

Authors:  Tina L Amyes; Bryant M Wood; Kui Chan; John A Gerlt; John P Richard
Journal:  J Am Chem Soc       Date:  2008-01-11       Impact factor: 15.419

6.  Dissecting the total transition state stabilization provided by amino acid side chains at orotidine 5'-monophosphate decarboxylase: a two-part substrate approach.

Authors:  Shonoi A Barnett; Tina L Amyes; Bryant M Wood; John A Gerlt; John P Richard
Journal:  Biochemistry       Date:  2008-07-04       Impact factor: 3.162

7.  The proton transfer reactions of muscle pyruvate kinase.

Authors:  J L Robinson; I A Rose
Journal:  J Biol Chem       Date:  1972-02-25       Impact factor: 5.157

Review 8.  Solvent isotope effects of enzyme systems.

Authors:  K B Schowen; R L Schowen
Journal:  Methods Enzymol       Date:  1982       Impact factor: 1.600

9.  Activation of R235A mutant orotidine 5'-monophosphate decarboxylase by the guanidinium cation: effective molarity of the cationic side chain of Arg-235.

Authors:  Shonoi A Barnett; Tina L Amyes; B McKay Wood; John A Gerlt; John P Richard
Journal:  Biochemistry       Date:  2010-02-09       Impact factor: 3.162

10.  Substrate Distortion and the Catalytic Reaction Mechanism of 5-Carboxyvanillate Decarboxylase.

Authors:  Anna Vladimirova; Yury Patskovsky; Alexander A Fedorov; Jeffrey B Bonanno; Elena V Fedorov; Rafael Toro; Brandan Hillerich; Ronald D Seidel; Nigel G J Richards; Steven C Almo; Frank M Raushel
Journal:  J Am Chem Soc       Date:  2016-01-12       Impact factor: 15.419

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  1 in total

Review 1.  Orotidine 5'-Monophosphate Decarboxylase: Probing the Limits of the Possible for Enzyme Catalysis.

Authors:  John P Richard; Tina L Amyes; Archie C Reyes
Journal:  Acc Chem Res       Date:  2018-03-29       Impact factor: 22.384

  1 in total

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