Literature DB >> 30183278

Kinetic Understanding of N2 Reduction versus H2 Evolution at the E4(4H) Janus State in the Three Nitrogenases.

Derek F Harris1, Zhi-Yong Yang1, Dennis R Dean2, Lance C Seefeldt1, Brian M Hoffman3.   

Abstract

The enzyme nitrogenase catalyzes the reduction of N2 to ammonia but also that of protons to H2. These reactions compete at the mechanistically central 'Janus' intermediate, denoted E4(4H), which has accumulated 4e-/4H+ as two bridging Fe-H-Fe hydrides on the active-site cofactor. This state can lose e-/H+ by hydride protonolysis (HP) or become activated by reductive elimination ( re) of the two hydrides and bind N2 with H2 loss, yielding an E4(2N2H) state that goes on to generate two NH3 molecules. Thus, E4(4H) represents the key branch point for these competing reactions. Here, we present a steady-state kinetic analysis that precisely describes this competition. The analysis demonstrates that steady-state, high-electron flux turnover overwhelmingly populates the E4 states at the expense of less reduced states, quenching HP at those states. The ratio of rate constants for E4(4H) hydride protonolysis ( kHP) versus reductive elimination ( kre) provides a sensitive measure of competition between these two processes and thus is a central parameter of nitrogenase catalysis. Analysis of measurements with the three nitrogenase variants (Mo-nitrogenase, V-nitrogenase, and Fe-nitrogenase) reveals that at a fixed N2 pressure their tendency to productively react with N2 to produce two NH3 molecules and an accompanying H2, rather than diverting electrons to the side reaction, HP production of H2, decreases with their ratio of rate constants, k re/ kHP: Mo-nitrogenase, 5.1 atm-1; V-nitrogenase, 2 atm-1; and Fe-nitrogenase, 0.77 atm-1 (namely, in a 1:0.39:0.15 ratio). Moreover, the lower catalytic effectiveness of the alternative nitrogenases, with more H2 production side reaction, is not caused by a higher kHP but by a significantly lower k re.

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Year:  2018        PMID: 30183278      PMCID: PMC6459397          DOI: 10.1021/acs.biochem.8b00784

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


  39 in total

1.  Duplication and extension of the Thorneley and Lowe kinetic model for Klebsiella pneumoniae nitrogenase catalysis using a MATHEMATICA software platform.

Authors:  P E Wilson; A C Nyborg; G D Watt
Journal:  Biophys Chem       Date:  2001-07-24       Impact factor: 2.352

2.  Mechanism of Molybdenum Nitrogenase.

Authors:  Barbara K. Burgess; David J. Lowe
Journal:  Chem Rev       Date:  1996-11-07       Impact factor: 60.622

3.  The natural history of nitrogen fixation.

Authors:  Jason Raymond; Janet L Siefert; Christopher R Staples; Robert E Blankenship
Journal:  Mol Biol Evol       Date:  2003-12-23       Impact factor: 16.240

4.  Involvement of the P cluster in intramolecular electron transfer within the nitrogenase MoFe protein.

Authors:  J W Peters; K Fisher; W E Newton; D R Dean
Journal:  J Biol Chem       Date:  1995-11-10       Impact factor: 5.157

5.  Identification of a key catalytic intermediate demonstrates that nitrogenase is activated by the reversible exchange of N₂ for H₂.

Authors:  Dmitriy Lukoyanov; Zhi-Yong Yang; Nimesh Khadka; Dennis R Dean; Lance C Seefeldt; Brian M Hoffman
Journal:  J Am Chem Soc       Date:  2015-03-05       Impact factor: 15.419

Review 6.  Vanadium nitrogenase: a two-hit wonder?

Authors:  Yilin Hu; Chi Chung Lee; Markus W Ribbe
Journal:  Dalton Trans       Date:  2011-11-18       Impact factor: 4.390

7.  Catalytic and biophysical properties of a nitrogenase Apo-MoFe protein produced by a nifB-deletion mutant of Azotobacter vinelandii.

Authors:  J Christiansen; P J Goodwin; W N Lanzilotta; L C Seefeldt; D R Dean
Journal:  Biochemistry       Date:  1998-09-08       Impact factor: 3.162

8.  Ligand binding to the FeMo-cofactor: structures of CO-bound and reactivated nitrogenase.

Authors:  Thomas Spatzal; Kathryn A Perez; Oliver Einsle; James B Howard; Douglas C Rees
Journal:  Science       Date:  2014-09-26       Impact factor: 47.728

9.  Second gene (nifH*) coding for a nitrogenase iron protein in Azotobacter chroococcum is adjacent to a gene coding for a ferredoxin-like protein.

Authors:  R Robson; P Woodley; R Jones
Journal:  EMBO J       Date:  1986-06       Impact factor: 11.598

10.  The structure of vanadium nitrogenase reveals an unusual bridging ligand.

Authors:  Daniel Sippel; Oliver Einsle
Journal:  Nat Chem Biol       Date:  2017-07-10       Impact factor: 15.040

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  12 in total

Review 1.  Reduction of Substrates by Nitrogenases.

Authors:  Lance C Seefeldt; Zhi-Yong Yang; Dmitriy A Lukoyanov; Derek F Harris; Dennis R Dean; Simone Raugei; Brian M Hoffman
Journal:  Chem Rev       Date:  2020-03-16       Impact factor: 60.622

Review 2.  Reactivity, Mechanism, and Assembly of the Alternative Nitrogenases.

Authors:  Andrew J Jasniewski; Chi Chung Lee; Markus W Ribbe; Yilin Hu
Journal:  Chem Rev       Date:  2020-03-04       Impact factor: 60.622

Review 3.  Electron Transfer in Nitrogenase.

Authors:  Hannah L Rutledge; F Akif Tezcan
Journal:  Chem Rev       Date:  2020-01-30       Impact factor: 60.622

Review 4.  Second and Outer Coordination Sphere Effects in Nitrogenase, Hydrogenase, Formate Dehydrogenase, and CO Dehydrogenase.

Authors:  Sven T Stripp; Benjamin R Duffus; Vincent Fourmond; Christophe Léger; Silke Leimkühler; Shun Hirota; Yilin Hu; Andrew Jasniewski; Hideaki Ogata; Markus W Ribbe
Journal:  Chem Rev       Date:  2022-07-18       Impact factor: 72.087

5.  Expression, Isolation, and Characterization of Vanadium Nitrogenase from Azotobacter vinelandii.

Authors:  Katharina Parison; Jakob Gies-Elterlein; Christian Trncik; Oliver Einsle
Journal:  Methods Mol Biol       Date:  2021

6.  Resolving the structure of the E1 state of Mo nitrogenase through Mo and Fe K-edge EXAFS and QM/MM calculations.

Authors:  Casey Van Stappen; Albert Thor Thorhallsson; Laure Decamps; Ragnar Bjornsson; Serena DeBeer
Journal:  Chem Sci       Date:  2019-09-04       Impact factor: 9.825

7.  A model for dinitrogen binding in the E4 state of nitrogenase.

Authors:  Albert Th Thorhallsson; Bardi Benediktsson; Ragnar Bjornsson
Journal:  Chem Sci       Date:  2019-10-15       Impact factor: 9.825

8.  Carbon substrate re-orders relative growth of a bacterium using Mo-, V-, or Fe-nitrogenase for nitrogen fixation.

Authors:  Katja E Luxem; Anne M L Kraepiel; Lichun Zhang; Jacob R Waldbauer; Xinning Zhang
Journal:  Environ Microbiol       Date:  2020-02-29       Impact factor: 5.491

9.  Reconstructing the evolutionary history of nitrogenases: Evidence for ancestral molybdenum-cofactor utilization.

Authors:  Amanda K Garcia; Hanon McShea; Bryan Kolaczkowski; Betül Kaçar
Journal:  Geobiology       Date:  2020-02-17       Impact factor: 4.407

10.  Specificity of NifEN and VnfEN for the Assembly of Nitrogenase Active Site Cofactors in Azotobacter vinelandii.

Authors:  Ana Pérez-González; Emilio Jimenez-Vicente; Jakob Gies-Elterlein; Alvaro Salinero-Lanzarote; Zhi-Yong Yang; Oliver Einsle; Lance C Seefeldt; Dennis R Dean
Journal:  mBio       Date:  2021-07-20       Impact factor: 7.867

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