Literature DB >> 22564171

Crystal structures of phosphite dehydrogenase provide insights into nicotinamide cofactor regeneration.

Yaozhong Zou1, Houjin Zhang, Joseph S Brunzelle, Tyler W Johannes, Ryan Woodyer, John E Hung, Nikhil Nair, Wilfred A van der Donk, Huimin Zhao, Satish K Nair.   

Abstract

The enzyme phosphite dehydrogenase (PTDH) catalyzes the NAD(+)-dependent conversion of phosphite to phosphate and represents the first biological catalyst that has been shown to conduct the enzymatic oxidation of phosphorus. Despite investigation for more than a decade into both the mechanism of its unusual reaction and its utility in cofactor regeneration, there has been a lack of any structural data for PTDH. Here we present the cocrystal structure of an engineered thermostable variant of PTDH bound to NAD(+) (1.7 Å resolution), as well as four other cocrystal structures of thermostable PTDH and its variants with different ligands (all between 1.85 and 2.3 Å resolution). These structures provide a molecular framework for understanding prior mutational analysis and point to additional residues, located in the active site, that may contribute to the enzymatic activity of this highly unusual catalyst.

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Year:  2012        PMID: 22564171      PMCID: PMC4316821          DOI: 10.1021/bi2016926

Source DB:  PubMed          Journal:  Biochemistry        ISSN: 0006-2960            Impact factor:   3.162


  39 in total

1.  Multiparametric scaling of diffraction intensities.

Authors:  Zbyszek Otwinowski; Dominika Borek; Wladyslaw Majewski; Wladek Minor
Journal:  Acta Crystallogr A       Date:  2003-04-25       Impact factor: 2.290

2.  wARP: improvement and extension of crystallographic phases by weighted averaging of multiple-refined dummy atomic models.

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Journal:  Acta Crystallogr D Biol Crystallogr       Date:  1997-07-01

3.  Crystal structure of NAD-dependent formate dehydrogenase.

Authors:  V S Lamzin; A E Aleshin; B V Strokopytov; M G Yukhnevich; V O Popov; E H Harutyunyan; K S Wilson
Journal:  Eur J Biochem       Date:  1992-06-01

4.  Optimizing a biocatalyst for improved NAD(P)H regeneration: directed evolution of phosphite dehydrogenase.

Authors:  Ryan Woodyer; Wilfred A van der Donk; Huimin Zhao
Journal:  Comb Chem High Throughput Screen       Date:  2006-05       Impact factor: 1.339

5.  Crystal structure of a ternary complex of Tritrichomonas foetus inosine 5'-monophosphate dehydrogenase: NAD+ orients the active site loop for catalysis.

Authors:  Lu Gan; Gregory A Petsko; Lizbeth Hedstrom
Journal:  Biochemistry       Date:  2002-11-05       Impact factor: 3.162

6.  Anticorrelated motions as a driving force in enzyme catalysis: the dehydrogenase reaction.

Authors:  Jia Luo; Thomas C Bruice
Journal:  Proc Natl Acad Sci U S A       Date:  2004-08-26       Impact factor: 11.205

7.  The htx and ptx operons of Pseudomonas stutzeri WM88 are new members of the pho regulon.

Authors:  Andrea K White; William W Metcalf
Journal:  J Bacteriol       Date:  2004-09       Impact factor: 3.490

8.  Crystal structures of Tritrichomonasfoetus inosine monophosphate dehydrogenase in complex with substrate, cofactor and analogs: a structural basis for the random-in ordered-out kinetic mechanism.

Authors:  Glen L Prosise; Hartmut Luecke
Journal:  J Mol Biol       Date:  2003-02-14       Impact factor: 5.469

9.  Crystal structure of a NAD-dependent D-glycerate dehydrogenase at 2.4 A resolution.

Authors:  J D Goldberg; T Yoshida; P Brick
Journal:  J Mol Biol       Date:  1994-03-04       Impact factor: 5.469

10.  Pre-steady-state studies of phosphite dehydrogenase demonstrate that hydride transfer is fully rate limiting.

Authors:  Emily J Fogle; Wilfred A van der Donk
Journal:  Biochemistry       Date:  2007-10-20       Impact factor: 3.162

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  13 in total

Review 1.  Redox cofactor engineering in industrial microorganisms: strategies, recent applications and future directions.

Authors:  Jiaheng Liu; Huiling Li; Guangrong Zhao; Qinggele Caiyin; Jianjun Qiao
Journal:  J Ind Microbiol Biotechnol       Date:  2018-03-27       Impact factor: 3.346

2.  Examining the Mechanism of Phosphite Dehydrogenase with Quantum Mechanical/Molecular Mechanical Free Energy Simulations.

Authors:  David R Stevens; Sharon Hammes-Schiffer
Journal:  Biochemistry       Date:  2020-02-14       Impact factor: 3.162

3.  18O Kinetic Isotope Effects Reveal an Associative Transition State for Phosphite Dehydrogenase Catalyzed Phosphoryl Transfer.

Authors:  Graeme W Howe; Wilfred A van der Donk
Journal:  J Am Chem Soc       Date:  2018-12-12       Impact factor: 15.419

4.  Temperature-Independent Kinetic Isotope Effects as Evidence for a Marcus-like Model of Hydride Tunneling in Phosphite Dehydrogenase.

Authors:  Graeme W Howe; Wilfred A van der Donk
Journal:  Biochemistry       Date:  2019-10-07       Impact factor: 3.162

5.  Supramolecular protein assembly supports immobilization of a cytochrome P450 monooxygenase system as water-insoluble gel.

Authors:  Cheau Yuaan Tan; Hidehiko Hirakawa; Teruyuki Nagamune
Journal:  Sci Rep       Date:  2015-03-03       Impact factor: 4.379

6.  New insights into the mechanism of substrates trafficking in Glyoxylate/Hydroxypyruvate reductases.

Authors:  Louise Lassalle; Sylvain Engilberge; Dominique Madern; Pierre Vauclare; Bruno Franzetti; Eric Girard
Journal:  Sci Rep       Date:  2016-02-11       Impact factor: 4.379

7.  Characterization of Carboxylic Acid Reductases as Enzymes in the Toolbox for Synthetic Chemistry.

Authors:  William Finnigan; Adam Thomas; Holly Cromar; Ben Gough; Radka Snajdrova; Joseph P Adams; Jennifer A Littlechild; Nicholas J Harmer
Journal:  ChemCatChem       Date:  2017-02-14       Impact factor: 5.686

8.  A Phosphite Dehydrogenase Variant with Promiscuous Access to Nicotinamide Cofactor Pools Sustains Fast Phosphite-Dependent Growth of Transplastomic Chlamydomonas reinhardtii.

Authors:  Edoardo Cutolo; Matteo Tosoni; Simone Barera; Luis Herrera-Estrella; Luca Dall'Osto; Roberto Bassi
Journal:  Plants (Basel)       Date:  2020-04-08

9.  Classification, substrate specificity and structural features of D-2-hydroxyacid dehydrogenases: 2HADH knowledgebase.

Authors:  Dorota Matelska; Ivan G Shabalin; Jagoda Jabłońska; Marcin J Domagalski; Jan Kutner; Krzysztof Ginalski; Wladek Minor
Journal:  BMC Evol Biol       Date:  2018-12-22       Impact factor: 3.260

10.  Chemical rescue and inhibition studies to determine the role of Arg301 in phosphite dehydrogenase.

Authors:  John E Hung; Emily J Fogle; Neha Garg; Jonathan R Chekan; Satish K Nair; Wilfred A van der Donk
Journal:  PLoS One       Date:  2014-01-31       Impact factor: 3.240

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