Literature DB >> 33103886

Nuclear Resonance Vibrational Spectroscopic Definition of the Facial Triad FeIV═O Intermediate in Taurine Dioxygenase: Evaluation of Structural Contributions to Hydrogen Atom Abstraction.

Martin Srnec1,2, Shyam R Iyer1, Laura M K Dassama3, Kiyoung Park1, Shaun D Wong1, Kyle D Sutherlin1, Yoshitaka Yoda4, Yasuhiro Kobayashi5, Masayuki Kurokuzu5, Makina Saito5, Makoto Seto5, Carsten Krebs3, J Martin Bollinger3, Edward I Solomon1.   

Abstract

The α-ketoglutarate (αKG)-dependent oxygenases catalyze a diverse range of chemical reactions using a common high-spin FeIV═O intermediate that, in most reactions, abstract a <span class="Chemical">hydrogen atom from the substrate. Previously, the FeIV═O intermediate in the αKG-dependent halogenase SyrB2 was characterized by nuclear resonance vibrational spectroscopy (NRVS) and density functional theory (DFT) calculations, which demonstrated that it has a trigonal-pyramidal geometry with the scissile C-H bond of the substrate calculated to be perpendicular to the Fe-O bond. Here, we have used NRVS and DFT calculations to show that the FeIV═O complex in taurine dioxygenase (TauD), the αKG-dependent hydroxylase in which this intermediate was first characterized, also has a trigonal bipyramidal geometry but with an aspartate residue replacing the equatorial halide of the SyrB2 intermediate. Computational analysis of hydrogen atom abstraction by square pyramidal, trigonal bipyramidal, and six-coordinate FeIV═O complexes in two different substrate orientations (one more along [σ channel] and another more perpendicular [π channel] to the Fe-O bond) reveals similar activation barriers. Thus, both substrate approaches to all three geometries are competent in hydrogen atom abstraction. The equivalence in reactivity between the two substrate orientations arises from compensation of the promotion energy (electronic excitation within the d manifold) required to access the π channel by the significantly larger oxyl character present in the pπ orbital oriented toward the substrate, which leads to an earlier transition state along the C-H coordinate.

Entities:  

Mesh:

Substances:

Year:  2020        PMID: 33103886      PMCID: PMC7642179          DOI: 10.1021/jacs.0c08903

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


  51 in total

Review 1.  Oxidative dealkylation DNA repair mediated by the mononuclear non-heme iron AlkB proteins.

Authors:  Yukiko Mishina; Chuan He
Journal:  J Inorg Biochem       Date:  2006-02-15       Impact factor: 4.155

2.  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

3.  π-Frontier molecular orbitals in S = 2 ferryl species and elucidation of their contributions to reactivity.

Authors:  Martin Srnec; Shaun D Wong; Jason England; Lawrence Que; Edward I Solomon
Journal:  Proc Natl Acad Sci U S A       Date:  2012-08-20       Impact factor: 11.205

4.  Evidence for Modulation of Oxygen Rebound Rate in Control of Outcome by Iron(II)- and 2-Oxoglutarate-Dependent Oxygenases.

Authors:  Juan Pan; Eliott S Wenger; Megan L Matthews; Christopher J Pollock; Minakshi Bhardwaj; Amelia J Kim; Benjamin D Allen; Robert B Grossman; Carsten Krebs; J Martin Bollinger
Journal:  J Am Chem Soc       Date:  2019-09-16       Impact factor: 15.419

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

Authors:  Andrew J Mitchell; Noah P Dunham; Ryan J Martinie; Jonathan A Bergman; Christopher J Pollock; Kai Hu; Benjamin D Allen; Wei-Chen Chang; Alexey Silakov; J Martin Bollinger; Carsten Krebs; Amie K Boal
Journal:  J Am Chem Soc       Date:  2017-09-20       Impact factor: 15.419

6.  A consistent and accurate ab initio parametrization of density functional dispersion correction (DFT-D) for the 94 elements H-Pu.

Authors:  Stefan Grimme; Jens Antony; Stephan Ehrlich; Helge Krieg
Journal:  J Chem Phys       Date:  2010-04-21       Impact factor: 3.488

7.  Direct spectroscopic detection of a C-H-cleaving high-spin Fe(IV) complex in a prolyl-4-hydroxylase.

Authors:  Lee M Hoffart; Eric W Barr; Robert B Guyer; J Martin Bollinger; Carsten Krebs
Journal:  Proc Natl Acad Sci U S A       Date:  2006-09-26       Impact factor: 11.205

8.  Spectroscopic Evidence for the Two C-H-Cleaving Intermediates of Aspergillus nidulans Isopenicillin N Synthase.

Authors:  Esta Tamanaha; Bo Zhang; Yisong Guo; Wei-Chen Chang; Eric W Barr; Gang Xing; Jennifer St Clair; Shengfa Ye; Frank Neese; J Martin Bollinger; Carsten Krebs
Journal:  J Am Chem Soc       Date:  2016-07-05       Impact factor: 15.419

9.  Chemical and steady-state kinetic analyses of a heterologously expressed heme dependent chlorite dismutase.

Authors:  Bennett R Streit; Jennifer L DuBois
Journal:  Biochemistry       Date:  2008-04-19       Impact factor: 3.162

10.  Geometric and Electronic Structural Contributions to Fe/O2 Reactivity.

Authors:  Edward I Solomon; Shyam R Iyer
Journal:  Bull Jpn Soc Coord Chem       Date:  2019-05-31
View more
  3 in total

1.  Bioinspired nonheme iron complex that triggers mitochondrial apoptotic signalling pathway specifically for colorectal cancer cells.

Authors:  Yool Lee; Chaeun Oh; Jin Kim; Myong-Suk Park; Woo Kyun Bae; Kyung Hyun Yoo; Seungwoo Hong
Journal:  Chem Sci       Date:  2021-12-11       Impact factor: 9.825

2.  Electrostatic Perturbations in the Substrate-Binding Pocket of Taurine/α-Ketoglutarate Dioxygenase Determine its Selectivity.

Authors:  Hafiz Saqib Ali; Sam P de Visser
Journal:  Chemistry       Date:  2022-01-22       Impact factor: 5.020

3.  Mechanisms of O2 Activation by Mononuclear Non-Heme Iron Enzymes.

Authors:  Edward I Solomon; Dory E DeWeese; Jeffrey T Babicz
Journal:  Biochemistry       Date:  2021-07-15       Impact factor: 3.162

  3 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.