Literature DB >> 15306384

Characteristics of nearly dry enzymes in organic solvents: implications for biocatalysis in the absence of water.

Douglas S Clark1.   

Abstract

We have examined enzymes in nearly anhydrous organic solvents spanning a wide range of dielectric constants using a combination of electron paramagnetic resonance (EPR) spectroscopy, molecular dynamics simulations, high-pressure kinetic studies and the electrostatic model of Kirkwood. This approach enabled us to investigate the relationship between catalytic activity, protein flexibility and solvent polarity for an enzymatic reaction proceeding through a highly polar transition state in the near absence of water. Further insights into water-protein interactions and the involvement of water in enzyme structure and function have been obtained by EPR and multinuclear nuclear magnetic resonance studies of enzymes suspended and immobilized in organic solvents with and without added water. In these systems, correlations were observed between the water content and enzyme activity, flexibility, and active-site polarity, although the structural properties of suspended and immobilized enzymes differed markedly. These results have helped to elucidate the role of water in molecular events at the enzymic active site leading to improved biocatalysis in low-water environments.

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Year:  2004        PMID: 15306384      PMCID: PMC1693408          DOI: 10.1098/rstb.2004.1506

Source DB:  PubMed          Journal:  Philos Trans R Soc Lond B Biol Sci        ISSN: 0962-8436            Impact factor:   6.237


  10 in total

1.  Intrinsic effects of solvent polarity on enzymic activation energies.

Authors:  J Kim; D S Clark; J S Dordick
Journal:  Biotechnol Bioeng       Date:  2000-01-05       Impact factor: 4.530

2.  Solvent dielectric effects on protein dynamics.

Authors:  R Affleck; C A Haynes; D S Clark
Journal:  Proc Natl Acad Sci U S A       Date:  1992-06-01       Impact factor: 11.205

3.  Enzymatic catalysis in nonaqueous solvents.

Authors:  A Zaks; A M Klibanov
Journal:  J Biol Chem       Date:  1988-03-05       Impact factor: 5.157

4.  Optimizing the salt-induced activation of enzymes in organic solvents: effects of lyophilization time and water content.

Authors:  M T Ru; J S Dordick; J A Reimer; D S Clark
Journal:  Biotechnol Bioeng       Date:  1999-04-20       Impact factor: 4.530

5.  Multinuclear NMR study of enzyme hydration in an organic solvent.

Authors:  C S Lee; M T Ru; M Haake; J S Dordick; J A Reimer; D S Clark
Journal:  Biotechnol Bioeng       Date:  1998-03-20       Impact factor: 4.530

Review 6.  The control of protein stability and association by weak interactions with water: how do solvents affect these processes?

Authors:  S N Timasheff
Journal:  Annu Rev Biophys Biomol Struct       Date:  1993

7.  Electrostatic potential maps at the quantum chemistry level of the active sites of the serine peptidases, alpha-chymotrypsin and subtilisin.

Authors:  J Lamotte-Brasseur; G Dive; D Dehareng; J M Ghuysen
Journal:  J Theor Biol       Date:  1990-07-24       Impact factor: 2.691

8.  Towards more active biocatalysts in organic media: increasing the activity of salt-activated enzymes.

Authors:  M T Ru; K C Wu; J P Lindsay; J S Dordick; J A Reimer; D S Clark
Journal:  Biotechnol Bioeng       Date:  2001-10-20       Impact factor: 4.530

9.  Combinatorial formulation of biocatalyst preparations for increased activity in organic solvents: salt activation of penicillin amidase.

Authors:  John P Lindsay; Douglas S Clark; Jonathan S Dordick
Journal:  Biotechnol Bioeng       Date:  2004-03-05       Impact factor: 4.530

10.  Enzymatic catalysis and dynamics in low-water environments.

Authors:  R Affleck; Z F Xu; V Suzawa; K Focht; D S Clark; J S Dordick
Journal:  Proc Natl Acad Sci U S A       Date:  1992-02-01       Impact factor: 11.205

  10 in total
  19 in total

Review 1.  What can we learn by studying enzymes in non-aqueous media?

Authors:  Peter J Halling
Journal:  Philos Trans R Soc Lond B Biol Sci       Date:  2004-08-29       Impact factor: 6.237

2.  Reversible dioxygen binding in solvent-free liquid myoglobin.

Authors:  Adam W Perriman; Alex P S Brogan; Helmut Cölfen; Nikolaos Tsoureas; Gareth R Owen; Stephen Mann
Journal:  Nat Chem       Date:  2010-06-06       Impact factor: 24.427

3.  Coupling between catalytic site and collective dynamics: a requirement for mechanochemical activity of enzymes.

Authors:  Lee-Wei Yang; Ivet Bahar
Journal:  Structure       Date:  2005-06       Impact factor: 5.006

4.  Conformational sampling of peptides in cellular environments.

Authors:  Seiichiro Tanizaki; Jacob Clifford; Brian D Connelly; Michael Feig
Journal:  Biophys J       Date:  2007-09-28       Impact factor: 4.033

5.  Effect of ionic liquids on epoxide hydrolase-catalyzed synthesis of chiral 1,2-diols.

Authors:  Cinzia Chiappe; Elsa Leandri; Bruce D Hammock; Christophe Morisseau
Journal:  Green Chem       Date:  2007       Impact factor: 10.182

6.  Effects of organic solvents and substrate binding on trypsin in acetonitrile and hexane media.

Authors:  Yanyan Meng; Yuan Yuan; Yanyan Zhu; Yanzhi Guo; Menglong Li; Zhimeng Wang; Xuemei Pu; Lin Jiang
Journal:  J Mol Model       Date:  2013-06-23       Impact factor: 1.810

7.  Biocatalyst activity in nonaqueous environments correlates with centisecond-range protein motions.

Authors:  Ross K Eppler; Elton P Hudson; Shannon D Chase; Jonathan S Dordick; Jeffrey A Reimer; Douglas S Clark
Journal:  Proc Natl Acad Sci U S A       Date:  2008-10-07       Impact factor: 11.205

8.  To Keep or Not to Keep? The Question of Crystallographic Waters for Enzyme Simulations in Organic Solvent.

Authors:  Jayangika N Dahanayake; Devaki N Gautam; Rajni Verma; Katie R Mitchell-Koch
Journal:  Mol Simul       Date:  2016-03-22       Impact factor: 2.178

9.  Water dynamics and salt-activation of enzymes in organic media: mechanistic implications revealed by NMR spectroscopy.

Authors:  Ross K Eppler; Russell S Komor; Joyce Huynh; Jonathan S Dordick; Jeffrey A Reimer; Douglas S Clark
Journal:  Proc Natl Acad Sci U S A       Date:  2006-04-03       Impact factor: 11.205

10.  Effects of water content on the tetrahedral intermediate of chymotrypsin - trifluoromethylketone in polar and non-polar media: observations from molecular dynamics simulation.

Authors:  Xue Tian; Lin Jiang; Yuan Yuan; Minqi Wang; Yanzhi Guo; Xiaojun Zeng; Menglong Li; Xuemei Pu
Journal:  J Mol Model       Date:  2013-03-01       Impact factor: 1.810

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