Literature DB >> 23373704

Fast protein motions are coupled to enzyme H-transfer reactions.

Christopher R Pudney1, Andrew Guerriero, Nicola J Baxter, Linus O Johannissen, Jonathan P Waltho, Sam Hay, Nigel S Scrutton.   

Abstract

Coupling of fast protein dynamics to enzyme chemistry is controversial and has ignited considerable debate, especially over the past 15 years in relation to enzyme-catalyzed H-transfer. H-transfer can occur by quantum tunneling, and the temperature dependence of kinetic isotope effects (KIEs) has emerged as the "gold standard" descriptor of these reactions. The anomalous temperature dependence of KIEs is often rationalized by invoking fast motions to facilitate H-transfer, yet crucially, direct evidence for coupled motions is lacking. The fast motions hypothesis underpinning the temperature dependence of KIEs is based on inference. Here, we have perturbed vibrational motions in pentaerythritol tetranitrate reductase (PETNR) by isotopic substitution where all non-exchangeable atoms were replaced with the corresponding heavy isotope ((13)C, (15)N, and (2)H). The KIE temperature dependence is perturbed by heavy isotope labeling, demonstrating a direct link between (promoting) vibrations in the protein and the observed KIE. Further we show that temperature-independent KIEs do not necessarily rule out a role for fast dynamics coupled to reaction chemistry. We show causality between fast motions and enzyme chemistry and demonstrate how this impacts on experimental KIEs for enzyme reactions.

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Year:  2013        PMID: 23373704     DOI: 10.1021/ja311277k

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  41 in total

1.  Resolution and Characterization of Chemical Steps in Enzyme Catalytic Sequences by Using Low-Temperature and Time-Resolved, Full-Spectrum EPR Spectroscopy in Fluid Cryosolvent and Frozen Solution Systems.

Authors:  Miao Wang; Chen Zhu; Meghan Kohne; Kurt Warncke
Journal:  Methods Enzymol       Date:  2015-09-14       Impact factor: 1.600

2.  Unraveling the role of protein dynamics in dihydrofolate reductase catalysis.

Authors:  Louis Y P Luk; J Javier Ruiz-Pernía; William M Dawson; Maite Roca; E Joel Loveridge; David R Glowacki; Jeremy N Harvey; Adrian J Mulholland; Iñaki Tuñón; Vicent Moliner; Rudolf K Allemann
Journal:  Proc Natl Acad Sci U S A       Date:  2013-09-24       Impact factor: 11.205

3.  Transition States and transition state analogue interactions with enzymes.

Authors:  Vern L Schramm
Journal:  Acc Chem Res       Date:  2015-04-07       Impact factor: 22.384

4.  Directed Evolution's Influence on Rapid Density Fluctuations Illustrates How Protein Dynamics Can Become Coupled to Chemistry.

Authors:  Joseph W Schafer; Steven D Schwartz
Journal:  ACS Catal       Date:  2020-07-07       Impact factor: 13.084

Review 5.  Evolutionary aspects of enzyme dynamics.

Authors:  Judith P Klinman; Amnon Kohen
Journal:  J Biol Chem       Date:  2014-09-10       Impact factor: 5.157

6.  Crystal Structure and Biophysical Analysis of Furfural-Detoxifying Aldehyde Reductase from Clostridium beijerinckii.

Authors:  Alan F Scott; Joel Cresser-Brown; Thomas L Williams; Pierre J Rizkallah; Yi Jin; Louis Y-P Luk; Rudolf K Allemann
Journal:  Appl Environ Microbiol       Date:  2019-07-18       Impact factor: 4.792

7.  Role of Protein Motions in Catalysis by Formate Dehydrogenase.

Authors:  Dimitri Antoniou; Steven D Schwartz
Journal:  J Phys Chem B       Date:  2020-10-16       Impact factor: 2.991

8.  Directed Evolution as a Probe of Rate Promoting Vibrations Introduced via Mutational Change.

Authors:  Xi Chen; Steven D Schwartz
Journal:  Biochemistry       Date:  2018-03-22       Impact factor: 3.162

9.  Hydride Transfer in DHFR by Transition Path Sampling, Kinetic Isotope Effects, and Heavy Enzyme Studies.

Authors:  Zhen Wang; Dimitri Antoniou; Steven D Schwartz; Vern L Schramm
Journal:  Biochemistry       Date:  2015-12-23       Impact factor: 3.162

Review 10.  Fundamental challenges in mechanistic enzymology: progress toward understanding the rate enhancements of enzymes.

Authors:  Daniel Herschlag; Aditya Natarajan
Journal:  Biochemistry       Date:  2013-03-14       Impact factor: 3.162

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