Literature DB >> 20382731

Single-molecule force spectroscopy approach to enzyme catalysis.

Jorge Alegre-Cebollada1, Raul Perez-Jimenez, Pallav Kosuri, Julio M Fernandez.   

Abstract

Enzyme catalysis has been traditionally studied using a diverse set of techniques such as bulk biochemistry, x-ray crystallography, and NMR. Recently, single-molecule force spectroscopy by atomic force microscopy has been used as a new tool to study the catalytic properties of an enzyme. In this approach, a mechanical force ranging up to hundreds of piconewtons is applied to the substrate of an enzymatic reaction, altering the conformational energy of the substrate-enzyme interactions during catalysis. From these measurements, the force dependence of an enzymatic reaction can be determined. The force dependence provides valuable new information about the dynamics of enzyme catalysis with sub-angstrom resolution, a feat unmatched by any other current technique. To date, single-molecule force spectroscopy has been applied to gain insight into the reduction of disulfide bonds by different enzymes of the thioredoxin family. This minireview aims to present a perspective on this new approach to study enzyme catalysis and to summarize the results that have already been obtained from it. Finally, the specific requirements that must be fulfilled to apply this new methodology to any other enzyme will be discussed.

Entities:  

Mesh:

Substances:

Year:  2010        PMID: 20382731      PMCID: PMC2885171          DOI: 10.1074/jbc.R109.011932

Source DB:  PubMed          Journal:  J Biol Chem        ISSN: 0021-9258            Impact factor:   5.157


  46 in total

1.  The unfolding kinetics of ubiquitin captured with single-molecule force-clamp techniques.

Authors:  Michael Schlierf; Hongbin Li; Julio M Fernandez
Journal:  Proc Natl Acad Sci U S A       Date:  2004-04-27       Impact factor: 11.205

Review 2.  Relating protein motion to catalysis.

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

3.  Contour length and refolding rate of a small protein controlled by engineered disulfide bonds.

Authors:  Sri Rama Koti Ainavarapu; Jasna Brujic; Hector H Huang; Arun P Wiita; Hui Lu; Lewyn Li; Kirstin A Walther; Mariano Carrion-Vazquez; Hongbin Li; Julio M Fernandez
Journal:  Biophys J       Date:  2006-10-06       Impact factor: 4.033

4.  Coordinated effects of distal mutations on environmentally coupled tunneling in dihydrofolate reductase.

Authors:  Lin Wang; Nina M Goodey; Stephen J Benkovic; Amnon Kohen
Journal:  Proc Natl Acad Sci U S A       Date:  2006-10-10       Impact factor: 11.205

Review 5.  QM/MM studies of enzymes.

Authors:  Hans Martin Senn; Walter Thiel
Journal:  Curr Opin Chem Biol       Date:  2007-02-16       Impact factor: 8.822

Review 6.  Ultrafast catalytic processes in enzymes.

Authors:  Dongping Zhong
Journal:  Curr Opin Chem Biol       Date:  2007-03-13       Impact factor: 8.822

7.  Single-molecule force spectroscopy measurements of bond elongation during a bimolecular reaction.

Authors:  Sri Rama Koti Ainavarapu; Arun P Wiita; Lorna Dougan; Einar Uggerud; Julio M Fernandez
Journal:  J Am Chem Soc       Date:  2008-04-24       Impact factor: 15.419

8.  Reduction of disulfides by thioredoxin. Exceptional reactivity of insulin and suggested functions of thioredoxin in mechanism of hormone action.

Authors:  A Holmgren
Journal:  J Biol Chem       Date:  1979-09-25       Impact factor: 5.157

9.  A single-molecule perspective on the role of solvent hydrogen bonds in protein folding and chemical reactions.

Authors:  Lorna Dougan; Ainavarapu Sri Rama Koti; Georgi Genchev; Hui Lu; Julio M Fernandez
Journal:  Chemphyschem       Date:  2008-12-22       Impact factor: 3.102

10.  Stepwise unfolding of titin under force-clamp atomic force microscopy.

Authors:  A F Oberhauser; P K Hansma; M Carrion-Vazquez; J M Fernandez
Journal:  Proc Natl Acad Sci U S A       Date:  2001-01-09       Impact factor: 11.205

View more
  9 in total

1.  Conformational plasticity of the essential membrane-associated mannosyltransferase PimA from mycobacteria.

Authors:  David Giganti; Jorge Alegre-Cebollada; Saioa Urresti; David Albesa-Jové; Ane Rodrigo-Unzueta; Natalia Comino; Michael Kachala; Sonia López-Fernández; Dmitri I Svergun; Julio M Fernández; Marcelo E Guerin
Journal:  J Biol Chem       Date:  2013-08-20       Impact factor: 5.157

2.  Direct quantification of the attempt frequency determining the mechanical unfolding of ubiquitin protein.

Authors:  Ionel Popa; Julio M Fernández; Sergi Garcia-Manyes
Journal:  J Biol Chem       Date:  2011-07-16       Impact factor: 5.157

3.  Role of substrate unbinding in Michaelis-Menten enzymatic reactions.

Authors:  Shlomi Reuveni; Michael Urbakh; Joseph Klafter
Journal:  Proc Natl Acad Sci U S A       Date:  2014-03-10       Impact factor: 11.205

4.  A simple DNA handle attachment method for single molecule mechanical manipulation experiments.

Authors:  Duyoung Min; Mark A Arbing; Robert E Jefferson; James U Bowie
Journal:  Protein Sci       Date:  2016-06-06       Impact factor: 6.725

Review 5.  Reactivity of thioredoxin as a protein thiol-disulfide oxidoreductase.

Authors:  Zhiyong Cheng; Jinfeng Zhang; David P Ballou; Charles H Williams
Journal:  Chem Rev       Date:  2011-07-27       Impact factor: 60.622

6.  Tracking unfolding and refolding reactions of single proteins using atomic force microscopy methods.

Authors:  Paul J Bujalowski; Andres F Oberhauser
Journal:  Methods       Date:  2013-03-20       Impact factor: 3.608

7.  Protein folding modulates the chemical reactivity of a Gram-positive adhesin.

Authors:  Alvaro Alonso-Caballero; Daniel J Echelman; Rafael Tapia-Rojo; Shubhasis Haldar; Edward C Eckels; Julio M Fernandez
Journal:  Nat Chem       Date:  2020-11-30       Impact factor: 24.427

8.  Single-molecule theory of enzymatic inhibition.

Authors:  Tal Robin; Shlomi Reuveni; Michael Urbakh
Journal:  Nat Commun       Date:  2018-02-22       Impact factor: 14.919

9.  Nanomechanical Study of Enzyme: Coenzyme Complexes: Bipartite Sites in Plastidic Ferredoxin-NADP+ Reductase for the Interaction with NADP.

Authors:  Sandra Pérez-Domínguez; Silvia Caballero-Mancebo; Carlos Marcuello; Marta Martínez-Júlvez; Milagros Medina; Anabel Lostao
Journal:  Antioxidants (Basel)       Date:  2022-03-11
  9 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.