Literature DB >> 25487146

The heat released during catalytic turnover enhances the diffusion of an enzyme.

Clement Riedel1, Ronen Gabizon1, Christian A M Wilson2, Kambiz Hamadani1, Konstantinos Tsekouras3, Susan Marqusee4, Steve Pressé5, Carlos Bustamante6.   

Abstract

Recent studies have shown that the diffusivity of enzymes increases in a substrate-dependent manner during catalysis. Although this observation has been reported and characterized for several different systems, the precise origin of this phenomenon is unknown. Calorimetric methods are often used to determine enthalpies from enzyme-catalysed reactions and can therefore provide important insight into their reaction mechanisms. The ensemble averages involved in traditional bulk calorimetry cannot probe the transient effects that the energy exchanged in a reaction may have on the catalyst. Here we obtain single-molecule fluorescence correlation spectroscopy data and analyse them within the framework of a stochastic theory to demonstrate a mechanistic link between the enhanced diffusion of a single enzyme molecule and the heat released in the reaction. We propose that the heat released during catalysis generates an asymmetric pressure wave that results in a differential stress at the protein-solvent interface that transiently displaces the centre-of-mass of the enzyme (chemoacoustic effect). This novel perspective on how enzymes respond to the energy released during catalysis suggests a possible effect of the heat of reaction on the structural integrity and internal degrees of freedom of the enzyme.

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Year:  2014        PMID: 25487146      PMCID: PMC4363105          DOI: 10.1038/nature14043

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


  26 in total

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Authors:  Robert N Goldberg; Yadu B Tewari; Talapady N Bhat
Journal:  Bioinformatics       Date:  2004-05-14       Impact factor: 6.937

2.  Simultaneous pH and temperature measurements using pyranine as a molecular probe.

Authors:  Felix H C Wong; Cécile Fradin
Journal:  J Fluoresc       Date:  2010-10-05       Impact factor: 2.217

Review 3.  Thirty years of heme catalases structural biology.

Authors:  Adelaida Díaz; Peter C Loewen; Ignacio Fita; Xavi Carpena
Journal:  Arch Biochem Biophys       Date:  2011-12-23       Impact factor: 4.013

Review 4.  Time-resolved photoacoustic calorimetry: probing the energetics and dynamics of fast chemical and biochemical reactions.

Authors:  K S Peters; G J Snyder
Journal:  Science       Date:  1988-08-26       Impact factor: 47.728

5.  Enzyme molecules as nanomotors.

Authors:  Samudra Sengupta; Krishna K Dey; Hari S Muddana; Tristan Tabouillot; Michael E Ibele; Peter J Butler; Ayusman Sen
Journal:  J Am Chem Soc       Date:  2013-01-22       Impact factor: 15.419

6.  A catalytically driven organometallic molecular motor.

Authors:  Ryan A Pavlick; Krishna K Dey; Andrew Sirjoosingh; Alan Benesi; Ayusman Sen
Journal:  Nanoscale       Date:  2013-02-21       Impact factor: 7.790

7.  Effects of amines and aminoalcohols on bovine intestine alkaline phosphatase activity.

Authors:  Satoshi Sekiguchi; Yasuhiko Hashida; Kiyoshi Yasukawa; Kuniyo Inouye
Journal:  Enzyme Microb Technol       Date:  2011-04-30       Impact factor: 3.493

8.  Direct observation of enzyme activity with the atomic force microscope.

Authors:  M Radmacher; M Fritz; H G Hansma; P K Hansma
Journal:  Science       Date:  1994-09-09       Impact factor: 47.728

9.  Isolation and characterization of urease from Aspergillus niger.

Authors:  P T Smith; A D King; N Goodman
Journal:  J Gen Microbiol       Date:  1993-05

10.  Substrate catalysis enhances single-enzyme diffusion.

Authors:  Hari S Muddana; Samudra Sengupta; Thomas E Mallouk; Ayusman Sen; Peter J Butler
Journal:  J Am Chem Soc       Date:  2010-02-24       Impact factor: 15.419

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  47 in total

1.  Biophysics: Enzymes surf the heat wave.

Authors:  A Joshua Wand
Journal:  Nature       Date:  2014-12-10       Impact factor: 49.962

Review 2.  Biophysics and the Genomic Sciences.

Authors:  David C Schwartz
Journal:  Biophys J       Date:  2019-07-30       Impact factor: 4.033

3.  A Thermodynamic Limit on the Role of Self-Propulsion in Enhanced Enzyme Diffusion.

Authors:  Mudong Feng; Michael K Gilson
Journal:  Biophys J       Date:  2019-04-11       Impact factor: 4.033

4.  Quantitative determination of ribosome nascent chain stability.

Authors:  Avi J Samelson; Madeleine K Jensen; Randy A Soto; Jamie H D Cate; Susan Marqusee
Journal:  Proc Natl Acad Sci U S A       Date:  2016-11-07       Impact factor: 11.205

5.  An in vitro tag-and-modify protein sample generation method for single-molecule fluorescence resonance energy transfer.

Authors:  Kambiz M Hamadani; Jesse Howe; Madeleine K Jensen; Peng Wu; Jamie H D Cate; Susan Marqusee
Journal:  J Biol Chem       Date:  2017-07-28       Impact factor: 5.157

6.  Directional Force Originating from ATP Hydrolysis Drives the GroEL Conformational Change.

Authors:  Jie Liu; Kannan Sankar; Yuan Wang; Kejue Jia; Robert L Jernigan
Journal:  Biophys J       Date:  2017-04-25       Impact factor: 4.033

7.  Force Spectrum Microscopy Using Mitochondrial Fluctuations of Control and ATP-Depleted Cells.

Authors:  Wenlong Xu; Elaheh Alizadeh; Ashok Prasad
Journal:  Biophys J       Date:  2018-06-19       Impact factor: 4.033

Review 8.  Synthetic, Switchable Enzymes.

Authors:  Vic Norris; Sergey N Krylov; Pratul K Agarwal; Glenn J White
Journal:  J Mol Microbiol Biotechnol       Date:  2017-04-28

9.  Probing conformational dynamics of an enzymatic active site by an in situ single fluorogenic probe under piconewton force manipulation.

Authors:  Nibedita Pal; Meiling Wu; H Peter Lu
Journal:  Proc Natl Acad Sci U S A       Date:  2016-12-08       Impact factor: 11.205

10.  Activated kinetics in a nonequilibrium thermal bath.

Authors:  Dmitry V Matyushov
Journal:  Proc Natl Acad Sci U S A       Date:  2016-08-05       Impact factor: 11.205

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