Literature DB >> 28823155

Visualizing the Reaction Cycle in an Iron(II)- and 2-(Oxo)-glutarate-Dependent Hydroxylase.

Andrew J Mitchell1, Noah P Dunham1, Ryan J Martinie2, Jonathan A Bergman2, Christopher J Pollock2, Kai Hu1,3, Benjamin D Allen1,3, Wei-Chen Chang2, Alexey Silakov2, J Martin Bollinger1,2, Carsten Krebs1,2, Amie K Boal1,2.   

Abstract

Iron(II)- and 2-(oxo)-glutarate-dependent oxygenases catalyze diverse oxidative transformations that are often initiated by abstraction of hydrogen from carbon by iron(IV)-oxo (ferryl) complexes. Control of the relative orientation of the substrate C-H and ferryl Fe-O bonds, primarily by direction of the oxo group into one of two cis-related coordination sites (termed inline and offline), may be generally important for control of the reaction outcome. Neither the ferryl complexes nor their fleeting precursors have been crystallographically characterized, hindering direct experimental validation of the offline hypothesis and elucidation of the means by which the protein might dictate an alternative oxo position. Comparison of high-resolution X-ray crystal structures of the substrate complex, an Fe(II)-peroxysuccinate ferryl precursor, and a vanadium(IV)-oxo mimic of the ferryl intermediate in the l-arginine 3-hydroxylase, VioC, reveals coordinated motions of active site residues that appear to control the intermediate geometries to determine reaction outcome.

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Year:  2017        PMID: 28823155      PMCID: PMC5852378          DOI: 10.1021/jacs.7b07374

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  34 in total

1.  In-crystal reaction cycle of a toluene-bound diiron hydroxylase.

Authors:  Justin F Acheson; Lucas J Bailey; Thomas C Brunold; Brian G Fox
Journal:  Nature       Date:  2017-03-27       Impact factor: 49.962

2.  Insight into the mechanism of an iron dioxygenase by resolution of steps following the FeIV=HO species.

Authors:  Piotr K Grzyska; Evan H Appelman; Robert P Hausinger; Denis A Proshlyakov
Journal:  Proc Natl Acad Sci U S A       Date:  2010-02-10       Impact factor: 11.205

Review 3.  The 2-His-1-carboxylate facial triad: a versatile platform for dioxygen activation by mononuclear non-heme iron(II) enzymes.

Authors:  Kevin D Koehntop; Joseph P Emerson; Lawrence Que
Journal:  J Biol Inorg Chem       Date:  2005-03-01       Impact factor: 3.358

4.  Electronic structure analysis of the oxygen-activation mechanism by Fe(II)- and α-ketoglutarate (αKG)-dependent dioxygenases.

Authors:  Shengfa Ye; Christoph Riplinger; Andreas Hansen; Carsten Krebs; J Martin Bollinger; Frank Neese
Journal:  Chemistry       Date:  2012-04-18       Impact factor: 5.236

5.  Structure-Guided Reprogramming of a Hydroxylase To Halogenate Its Small Molecule Substrate.

Authors:  Andrew J Mitchell; Noah P Dunham; Jonathan A Bergman; Bo Wang; Qin Zhu; Wei-Chen Chang; Xinyu Liu; Amie K Boal
Journal:  Biochemistry       Date:  2017-01-11       Impact factor: 3.162

6.  Mechanism of dioxygen activation in 2-oxoglutarate-dependent enzymes: a hybrid DFT study.

Authors:  Tomasz Borowski; Arianna Bassan; Per E M Siegbahn
Journal:  Chemistry       Date:  2004-02-20       Impact factor: 5.236

7.  Structural basis for the erythro-stereospecificity of the L-arginine oxygenase VioC in viomycin biosynthesis.

Authors:  Verena Helmetag; Stefan A Samel; Michael G Thomas; Mohamed A Marahiel; Lars-Oliver Essen
Journal:  FEBS J       Date:  2009-05-26       Impact factor: 5.542

8.  Identification of a low-spin acylperoxoiron(III) intermediate in bio-inspired non-heme iron-catalysed oxidations.

Authors:  Williamson N Oloo; Katlyn K Meier; Yong Wang; Sason Shaik; Eckard Münck; Lawrence Que
Journal:  Nat Commun       Date:  2014       Impact factor: 14.919

9.  Conversion of (2S)-arginine to (2S,3R)-capreomycidine by VioC and VioD from the viomycin biosynthetic pathway of Streptomyces sp. strain ATCC11861.

Authors:  Jianhua Ju; Sarah G Ozanick; Ben Shen; Michael G Thomas
Journal:  Chembiochem       Date:  2004-09-06       Impact factor: 3.164

10.  Substrate-triggered formation and remarkable stability of the C-H bond-cleaving chloroferryl intermediate in the aliphatic halogenase, SyrB2.

Authors:  Megan L Matthews; Courtney M Krest; Eric W Barr; Frédéric H Vaillancourt; Christopher T Walsh; Michael T Green; Carsten Krebs; J Martin Bollinger
Journal:  Biochemistry       Date:  2009-05-26       Impact factor: 3.162

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  30 in total

1.  Two Distinct Mechanisms for C-C Desaturation by Iron(II)- and 2-(Oxo)glutarate-Dependent Oxygenases: Importance of α-Heteroatom Assistance.

Authors:  Noah P Dunham; Wei-Chen Chang; Andrew J Mitchell; Ryan J Martinie; Bo Zhang; Jonathan A Bergman; Lauren J Rajakovich; Bo Wang; Alexey Silakov; Carsten Krebs; Amie K Boal; J Martin Bollinger
Journal:  J Am Chem Soc       Date:  2018-06-04       Impact factor: 15.419

2.  α-Amine Desaturation of d-Arginine by the Iron(II)- and 2-(Oxo)glutarate-Dependent l-Arginine 3-Hydroxylase, VioC.

Authors:  Noah P Dunham; Andrew J Mitchell; José M Del Río Pantoja; Carsten Krebs; J Martin Bollinger; Amie K Boal
Journal:  Biochemistry       Date:  2018-11-07       Impact factor: 3.162

3.  Epoxidation Catalyzed by the Nonheme Iron(II)- and 2-Oxoglutarate-Dependent Oxygenase, AsqJ: Mechanistic Elucidation of Oxygen Atom Transfer by a Ferryl Intermediate.

Authors:  Jikun Li; Hsuan-Jen Liao; Yijie Tang; Jhih-Liang Huang; Lide Cha; Te-Sheng Lin; Justin L Lee; Igor V Kurnikov; Maria G Kurnikova; Wei-Chen Chang; Nei-Li Chan; Yisong Guo
Journal:  J Am Chem Soc       Date:  2020-03-16       Impact factor: 15.419

Review 4.  Glutarate L-2-hydroxylase (CsiD/GlaH) is an archetype Fe(II)/2-oxoglutarate-dependent dioxygenase.

Authors:  Caitlyn Q Herr; Lee Macomber; Efthalia Kalliri; Robert P Hausinger
Journal:  Adv Protein Chem Struct Biol       Date:  2019-06-10       Impact factor: 3.507

5.  Hydrogen Donation but not Abstraction by a Tyrosine (Y68) during Endoperoxide Installation by Verruculogen Synthase (FtmOx1).

Authors:  Noah P Dunham; José M Del Río Pantoja; Bo Zhang; Lauren J Rajakovich; Benjamin D Allen; Carsten Krebs; Amie K Boal; J Martin Bollinger
Journal:  J Am Chem Soc       Date:  2019-06-12       Impact factor: 15.419

Review 6.  β-Hydroxyaspartic acid in siderophores: biosynthesis and reactivity.

Authors:  Clifford D Hardy; Alison Butler
Journal:  J Biol Inorg Chem       Date:  2018-06-26       Impact factor: 3.358

7.  Structural Origin of the Large Redox-Linked Reorganization in the 2-Oxoglutarate Dependent Oxygenase, TauD.

Authors:  Christopher W John; Robert P Hausinger; Denis A Proshlyakov
Journal:  J Am Chem Soc       Date:  2019-09-11       Impact factor: 15.419

8.  Molecular basis for enantioselective herbicide degradation imparted by aryloxyalkanoate dioxygenases in transgenic plants.

Authors:  Jonathan R Chekan; Chayanid Ongpipattanakul; Terry R Wright; Bo Zhang; J Martin Bollinger; Lauren J Rajakovich; Carsten Krebs; Robert M Cicchillo; Satish K Nair
Journal:  Proc Natl Acad Sci U S A       Date:  2019-06-17       Impact factor: 11.205

9.  Nature's Machinery, Repurposed: Expanding the Repertoire of Iron-Dependent Oxygenases.

Authors:  Noah P Dunham; Frances H Arnold
Journal:  ACS Catal       Date:  2020-09-28       Impact factor: 13.084

10.  Anaerobic fixed-target serial crystallography.

Authors:  Patrick Rabe; John H Beale; Agata Butryn; Pierre Aller; Anna Dirr; Pauline A Lang; Danny N Axford; Stephen B Carr; Thomas M Leissing; Michael A McDonough; Bradley Davy; Ali Ebrahim; Julien Orlans; Selina L S Storm; Allen M Orville; Christopher J Schofield; Robin L Owen
Journal:  IUCrJ       Date:  2020-08-21       Impact factor: 4.769

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