Literature DB >> 27348724

Hydrostatic Pressure Studies Distinguish Global from Local Protein Motions in C-H Activation by Soybean Lipoxygenase-1.

Shenshen Hu1, Jérôme Cattin-Ortolá1,2, Jeffrey W Munos1,3, Judith P Klinman4,5.   

Abstract

The proposed contributions of distinct classes of local versus global protein motions during enzymatic bond making/breaking processes has been difficult to verify. We employed soybean lipoxygenase-1 as a model system to investigate the impact of high pressure at variable temperatures on the hydrogen-tunneling properties of the wild-type protein and three single-site mutants. For all variants, pressure dramatically elevates the enthalpies of activation for the C-H activation. In contrast, the primary kinetic isotope effects (KIEs) for C-H activation and their corresponding temperature dependencies remain unchanged up to ca. 700 bar. The differential impact of elevated hydrostatic pressure on the temperature dependencies of rate constants versus substrate KIEs provides direct evidence for two distinct classes of protein motions: local, isotope-dependent donor-acceptor distance-sampling modes, and a more global, isotope-independent search for productive protein conformational sub-states.
© 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Entities:  

Keywords:  biocatalysis; enzymes; hydrostatic pressure; protein conformations; protein motions

Mesh:

Substances:

Year:  2016        PMID: 27348724      PMCID: PMC5040518          DOI: 10.1002/anie.201603592

Source DB:  PubMed          Journal:  Angew Chem Int Ed Engl        ISSN: 1433-7851            Impact factor:   15.336


  33 in total

Review 1.  Pressure effects on intra- and intermolecular interactions within proteins.

Authors:  Boonchai B Boonyaratanakornkit; Chan Beum Park; Douglas S Clark
Journal:  Biochim Biophys Acta       Date:  2002-03-25

2.  Temperature-dependent isotope effects in soybean lipoxygenase-1: correlating hydrogen tunneling with protein dynamics.

Authors:  Michael J Knapp; Keith Rickert; Judith P Klinman
Journal:  J Am Chem Soc       Date:  2002-04-17       Impact factor: 15.419

3.  Close identity of a pressure-stabilized intermediate with a kinetic intermediate in protein folding.

Authors:  Ryo Kitahara; Kazuyuki Akasaka
Journal:  Proc Natl Acad Sci U S A       Date:  2003-03-10       Impact factor: 11.205

4.  Pressure effects on enzyme-catalyzed quantum tunneling events arise from protein-specific structural and dynamic changes.

Authors:  Sam Hay; Linus O Johannissen; Parvinder Hothi; Michael J Sutcliffe; Nigel S Scrutton
Journal:  J Am Chem Soc       Date:  2012-06-05       Impact factor: 15.419

Review 5.  Relating protein motion to catalysis.

Authors:  Sharon Hammes-Schiffer; Stephen J Benkovic
Journal:  Annu Rev Biochem       Date:  2006       Impact factor: 23.643

Review 6.  Long-timescale molecular dynamics simulations of protein structure and function.

Authors:  John L Klepeis; Kresten Lindorff-Larsen; Ron O Dror; David E Shaw
Journal:  Curr Opin Struct Biol       Date:  2009-04-08       Impact factor: 6.809

7.  A 21st century revisionist's view at a turning point in enzymology.

Authors:  Zachary D Nagel; Judith P Klinman
Journal:  Nat Chem Biol       Date:  2009-08       Impact factor: 15.040

8.  Evidence to support the hypothesis that promoting vibrations enhance the rate of an enzyme catalyzed H-tunneling reaction.

Authors:  Christopher R Pudney; Sam Hay; Colin Levy; Jiayun Pang; Michael J Sutcliffe; David Leys; Nigel S Scrutton
Journal:  J Am Chem Soc       Date:  2009-12-02       Impact factor: 15.419

9.  Emerging concepts about the role of protein motion in enzyme catalysis.

Authors:  Sharon Hammes-Schiffer; Judith Klinman
Journal:  Acc Chem Res       Date:  2015-04-21       Impact factor: 22.384

10.  Picosecond-resolved fluorescence studies of substrate and cofactor-binding domain mutants in a thermophilic alcohol dehydrogenase uncover an extended network of communication.

Authors:  Corey W Meadows; Jonathan E Tsang; Judith P Klinman
Journal:  J Am Chem Soc       Date:  2014-10-14       Impact factor: 15.419

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  6 in total

1.  Comparative kinetic isotope effects on first- and second-order rate constants of soybean lipoxygenase variants uncover a substrate-binding network.

Authors:  Shenshen Hu; Adam R Offenbacher; Edbert D Lu; Judith P Klinman
Journal:  J Biol Chem       Date:  2019-10-17       Impact factor: 5.157

Review 2.  Understanding Biological Hydrogen Transfer Through the Lens of Temperature Dependent Kinetic Isotope Effects.

Authors:  Judith P Klinman; Adam R Offenbacher
Journal:  Acc Chem Res       Date:  2018-08-28       Impact factor: 22.384

3.  Biophysical Characterization of a Disabled Double Mutant of Soybean Lipoxygenase: The "Undoing" of Precise Substrate Positioning Relative to Metal Cofactor and an Identified Dynamical Network.

Authors:  Shenshen Hu; Adam R Offenbacher; Erin M Thompson; Christine L Gee; Jarett Wilcoxen; Cody A M Carr; Daniil M Prigozhin; Vanessa Yang; Tom Alber; R David Britt; James S Fraser; Judith P Klinman
Journal:  J Am Chem Soc       Date:  2019-01-15       Impact factor: 15.419

4.  Origins of Enzyme Catalysis: Experimental Findings for C-H Activation, New Models, and Their Relevance to Prevailing Theoretical Constructs.

Authors:  Judith P Klinman; Adam R Offenbacher; Shenshen Hu
Journal:  J Am Chem Soc       Date:  2017-12-15       Impact factor: 15.419

5.  Hydrogen deuterium exchange defines catalytically linked regions of protein flexibility in the catechol O-methyltransferase reaction.

Authors:  Jianyu Zhang; Jeremy L Balsbaugh; Shuaihua Gao; Natalie G Ahn; Judith P Klinman
Journal:  Proc Natl Acad Sci U S A       Date:  2020-05-05       Impact factor: 11.205

6.  Enhanced Rigidification within a Double Mutant of Soybean Lipoxygenase Provides Experimental Support for Vibronically Nonadiabatic Proton-Coupled Electron Transfer Models.

Authors:  Shenshen Hu; Alexander V Soudackov; Sharon Hammes-Schiffer; Judith P Klinman
Journal:  ACS Catal       Date:  2017-04-20       Impact factor: 13.084

  6 in total

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