Literature DB >> 23649628

Enzymatic detoxication, conformational selection, and the role of molten globule active sites.

Matthew T Honaker1, Mauro Acchione, Wei Zhang, Bengt Mannervik, William M Atkins.   

Abstract

The role of conformational ensembles in enzymatic reactions remains unclear. Discussion concerning "induced fit" versus "conformational selection" has, however, ignored detoxication enzymes, which exhibit catalytic promiscuity. These enzymes dominate drug metabolism and determine drug-drug interactions. The detoxication enzyme glutathione transferase A1-1 (GSTA1-1), exploits a molten globule-like active site to achieve remarkable catalytic promiscuity wherein the substrate-free conformational ensemble is broad with barrierless transitions between states. A quantitative index of catalytic promiscuity is used to compare engineered variants of GSTA1-1 and the catalytic promiscuity correlates strongly with characteristics of the thermodynamic partition function, for the substrate-free enzymes. Access to chemically disparate transition states is encoded by the substrate-free conformational ensemble. Pre-steady state catalytic data confirm an extension of the conformational selection model, wherein different substrates select different starting conformations. The kinetic liability of the conformational breadth is minimized by a smooth landscape. We propose that "local" molten globule behavior optimizes detoxication enzymes.

Entities:  

Keywords:  Calorimetry; Drug Metabolism; Energy Landscape; Enzyme Catalysis; Enzyme Conformation; Glutathion; Promiscuity; Xenobiotics

Mesh:

Substances:

Year:  2013        PMID: 23649628      PMCID: PMC3689999          DOI: 10.1074/jbc.M112.445767

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


  37 in total

1.  Exploring protein-folding ensembles: a variable-barrier model for the analysis of equilibrium unfolding experiments.

Authors:  Victor Muñoz; Jose M Sanchez-Ruiz
Journal:  Proc Natl Acad Sci U S A       Date:  2004-12-09       Impact factor: 11.205

2.  Direct measurement of barrier heights in protein folding.

Authors:  Athi N Naganathan; Jose M Sanchez-Ruiz; Victor Muñoz
Journal:  J Am Chem Soc       Date:  2005-12-28       Impact factor: 15.419

Review 3.  Cytochrome P450s and other enzymes in drug metabolism and toxicity.

Authors:  F Peter Guengerich
Journal:  AAPS J       Date:  2006-03-10       Impact factor: 4.009

4.  Structure and dynamics of a molten globular enzyme.

Authors:  Konstantin Pervushin; Katherina Vamvaca; Beat Vögeli; Donald Hilvert
Journal:  Nat Struct Mol Biol       Date:  2007-11-11       Impact factor: 15.369

Review 5.  Free-energy landscape of enzyme catalysis.

Authors:  Stephen J Benkovic; Gordon G Hammes; Sharon Hammes-Schiffer
Journal:  Biochemistry       Date:  2008-02-26       Impact factor: 3.162

6.  Selected-fit versus induced-fit protein binding: kinetic differences and mutational analysis.

Authors:  Thomas R Weikl; Carola von Deuster
Journal:  Proteins       Date:  2009-04

7.  Functional promiscuity correlates with conformational heterogeneity in A-class glutathione S-transferases.

Authors:  Liming Hou; Matthew T Honaker; Laura M Shireman; Larissa M Balogh; Arthur G Roberts; Kei-Cheuk Ng; Abhinav Nath; William M Atkins
Journal:  J Biol Chem       Date:  2007-06-08       Impact factor: 5.157

8.  Structural basis for ligand promiscuity in cytochrome P450 3A4.

Authors:  Marika Ekroos; Tove Sjögren
Journal:  Proc Natl Acad Sci U S A       Date:  2006-09-05       Impact factor: 11.205

9.  Emergence of a novel highly specific and catalytically efficient enzyme from a naturally promiscuous glutathione transferase.

Authors:  Cecilia Blikstad; Abeer Shokeer; Sanela Kurtovic; Bengt Mannervik
Journal:  Biochim Biophys Acta       Date:  2008-07-28

10.  A quantitative index of substrate promiscuity.

Authors:  Abhinav Nath; William M Atkins
Journal:  Biochemistry       Date:  2007-12-15       Impact factor: 3.162

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  13 in total

1.  Conformational selection turns on phenylalanine hydroxylase.

Authors:  Kirill A Konovalov; Wei Wang; Xuhui Huang
Journal:  J Biol Chem       Date:  2018-12-21       Impact factor: 5.157

2.  Conformational dynamics of P-glycoprotein in lipid nanodiscs and detergent micelles reveal complex motions on a wide time scale.

Authors:  Mavis Jiarong Li; Miklos Guttman; William M Atkins
Journal:  J Biol Chem       Date:  2018-03-06       Impact factor: 5.157

3.  Global Kinetic Mechanism of Microsomal Glutathione Transferase 1 and Insights into Dynamic Enzyme Activation.

Authors:  Linda Spahiu; Johan Ålander; Astrid Ottosson-Wadlund; Richard Svensson; Carina Lehmer; Richard N Armstrong; Ralf Morgenstern
Journal:  Biochemistry       Date:  2017-06-09       Impact factor: 3.162

4.  An evolutionary biochemist's perspective on promiscuity.

Authors:  Shelley D Copley
Journal:  Trends Biochem Sci       Date:  2015-01-05       Impact factor: 13.807

5.  Loosely-packed dynamical structures with partially-melted surface being the key for thermophilic argonaute proteins achieving high DNA-cleavage activity.

Authors:  Lirong Zheng; Hui Lu; Bing Zan; Song Li; Hao Liu; Zhuo Liu; Juan Huang; Yongjia Liu; Fan Jiang; Qian Liu; Yan Feng; Liang Hong
Journal:  Nucleic Acids Res       Date:  2022-07-22       Impact factor: 19.160

Review 6.  Biological messiness vs. biological genius: Mechanistic aspects and roles of protein promiscuity.

Authors:  William M Atkins
Journal:  J Steroid Biochem Mol Biol       Date:  2014-09-12       Impact factor: 4.292

7.  Comparison of epsilon- and delta-class glutathione S-transferases: the crystal structures of the glutathione S-transferases DmGSTE6 and DmGSTE7 from Drosophila melanogaster.

Authors:  Michele Scian; Isolde Le Trong; Aslam M A Mazari; Bengt Mannervik; William M Atkins; Ronald E Stenkamp
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2015-09-26

8.  ESR Resolves the C Terminus Structure of the Ligand-free Human Glutathione S-Transferase A1-1.

Authors:  Matthew J Lawless; John R Pettersson; Gordon S Rule; Frederick Lanni; Sunil Saxena
Journal:  Biophys J       Date:  2018-02-06       Impact factor: 4.033

9.  Polysaccharides from Trichosanthes Fructus via Ultrasound-Assisted Enzymatic Extraction Using Response Surface Methodology.

Authors:  Fujia Chen; Dahong Li; Hongqi Shen; Chunhong Wang; Enzhong Li; Huihui Xing; Li Guo; Qingchun Zhao; Junhao Shi; Hoang Nguyen; Jiayang Liu
Journal:  Biomed Res Int       Date:  2017-09-25       Impact factor: 3.411

10.  Does occupational exposure to solvents and pesticides in association with glutathione S-transferase A1, M1, P1, and T1 polymorphisms increase the risk of bladder cancer? The Belgrade case-control study.

Authors:  Marija G Matic; Vesna M Coric; Ana R Savic-Radojevic; Petar V Bulat; Marija S Pljesa-Ercegovac; Dejan P Dragicevic; Tatjana I Djukic; Tatjana P Simic; Tatjana D Pekmezovic
Journal:  PLoS One       Date:  2014-06-10       Impact factor: 3.240

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