DOE PAGES title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: Mechanisms of O2 Activation by Mononuclear Non-Heme Iron Enzymes

Journal Article · · Biochemistry
ORCiD logo [1];  [2];  [2]
  1. Stanford University, CA (United States); SLAC National Accelerator Lab., Menlo Park, CA (United States)
  2. Stanford University, CA (United States)

We report two major subclasses of mononuclear non-heme ferrous enzymes use two electron-donating organic cofactors (α-ketoglutarate or pterin) to activate O2 to form FeIV=O intermediates that further react with their substrates through hydrogen atom abstraction or electrophilic aromatic substitution. New spectroscopic methodologies have been developed, enabling the study of the active sites in these enzymes and their oxygen intermediates. Coupled to electronic structure calculations, the results of these spectroscopies provide fundamental insight into mechanism. This Perspective summarizes the results of these studies in elucidating the mechanism of dioxygen activation to form the FeIV=O intermediate and the geometric and electronic structure of this intermediate that enables its high reactivity and selectivity in product formation.

Research Organization:
SLAC National Accelerator Laboratory (SLAC), Menlo Park, CA (United States)
Sponsoring Organization:
National Institutes of Health (NIH0; USDOE Office of Science (SC), Basic Energy Sciences (BES)
Grant/Contract Number:
AC02-76SF00515
OSTI ID:
1874263
Journal Information:
Biochemistry, Journal Name: Biochemistry Journal Issue: 46 Vol. 60; ISSN 0006-2960
Publisher:
American Chemical Society (ACS)Copyright Statement
Country of Publication:
United States
Language:
English

References (67)

A Combined NRVS and DFT Study of Fe IV O Model Complexes: A Diagnostic Method for the Elucidation of Non-Heme Iron Enzyme Intermediates journal November 2008
Nuclear Resonance Vibrational Spectroscopy on the FeIVO S=2 Non-Heme Site in TMG3tren: Experimentally Calibrated Insights into Reactivity journal March 2011
A New Class of Arylamine Oxygenases: Evidence that p-Aminobenzoate N-Oxygenase (AurF) is a Di-iron Enzyme and Further Mechanistic Studies journal July 2006
Magnetic circular dichroism spectroscopy as a probe of the geometric and electronic structure of non-heme ferrous enzymes journal October 1995
A single monomeric iron center in clavaminate synthase catalyzes three nonsuccessive oxidative transformations journal July 1996
Structural and mechanistic studies on 2-oxoglutarate-dependent oxygenases and related enzymes journal December 1999
A new model for allosteric regulation of phenylalanine hydroxylase: Implications for disease and therapeutics journal February 2013
2.0Å Resolution Crystal Structures of the Ternary Complexes of Human Phenylalanine Hydroxylase Catalytic Domain with Tetrahydrobiopterin and 3-(2-Thienyl)-l-alanine or l-Norleucine: Substrate Specificity and Molecular Motions Related to Substrate Binding journal October 2003
Repair of methyl lesions in DNA and RNA by oxidative demethylation journal April 2007
Mechanism of extradiol aromatic ring-cleaving dioxygenases journal December 2008
Recent Structural Insights into Cytochrome P450 Function journal August 2016
Rate-Determining Attack on Substrate Precedes Rieske Cluster Oxidation during Cis-Dihydroxylation by Benzoate Dioxygenase journal July 2015
O 2 Activation by Non-Heme Iron Enzymes journal November 2016
Dioxygen Activation by Nonheme Diiron Enzymes: Diverse Dioxygen Adducts, High-Valent Intermediates, and Related Model Complexes journal December 2017
Geometric and Electronic Structure Contributions to Function in Non-heme Iron Enzymes journal July 2013
Non-Heme Fe(IV)–Oxo Intermediates journal July 2007
X-ray Crystal Structure of Escherichia coli Taurine/α-Ketoglutarate Dioxygenase Complexed to Ferrous Iron and Substrates , journal April 2002
Single Turnover Kinetics of Tryptophan Hydroxylase: Evidence for a New Intermediate in the Reaction of the Aromatic Amino Acid Hydroxylases journal August 2010
X-ray Absorption Spectroscopy Structural Investigation of Early Intermediates in the Mechanism of DNA Repair by Human ABH2 journal June 2011
Evidence for a High-Spin Fe(IV) Species in the Catalytic Cycle of a Bacterial Phenylalanine Hydroxylase journal March 2011
Kinetic Mechanism of Phenylalanine Hydroxylase: Intrinsic Binding and Rate Constants from Single-Turnover Experiments journal January 2013
Studies on Deacetoxycephalosporin C Synthase Support a Consensus Mechanism for 2-Oxoglutarate Dependent Oxygenases journal April 2014
Hydrogen Peroxide Dependent cis -Dihydroxylation of Benzoate by Fully Oxidized Benzoate 1,2-Dioxygenase journal June 2007
A Mechanism for Hydroxylation by Tyrosine Hydroxylase Based on Partitioning of Substituted Phenylalanines journal January 1996
Heme Enzyme Structure and Function journal January 2014
Pterin-Dependent Amino Acid Hydroxylases journal January 1996
Geometric and Electronic Structure/Function Correlations in Non-Heme Iron Enzymes journal January 2000
Mechanism and Catalytic Diversity of Rieske Non-Heme Iron-Dependent Oxygenases journal September 2013
Oxidative cyclization chemistry catalyzed by clavaminate synthase journal September 1989
Direct Spectroscopic Evidence for a High-Spin Fe(IV) Intermediate in Tyrosine Hydroxylase journal September 2007
The Crystal Structure of a High-Spin Oxoiron(IV) Complex and Characterization of Its Self-Decay Pathway journal June 2010
Circular Dichroism and Magnetic Circular Dichroism Spectroscopic Studies of the Non-Heme Ferrous Active Site in Clavaminate Synthase and Its Interaction with α-Ketoglutarate Cosubstrate journal February 1998
Nuclear Resonance Vibrational Spectroscopic Definition of the Facial Triad Fe IV ═O Intermediate in Taurine Dioxygenase: Evaluation of Structural Contributions to Hydrogen Atom Abstraction journal October 2020
Electronic Structure of the Ferryl Intermediate in the α-Ketoglutarate Dependent Non-Heme Iron Halogenase SyrB2: Contributions to H Atom Abstraction Reactivity journal April 2016
Mechanism for Six-Electron Aryl-N-Oxygenation by the Non-Heme Diiron Enzyme CmlI journal June 2016
Spectroscopic Evidence for the Two C–H-Cleaving Intermediates of Aspergillus nidulans Isopenicillin N Synthase journal July 2016
Frontier Molecular Orbital Contributions to Chlorination versus Hydroxylation Selectivity in the Non-Heme Iron Halogenase SyrB2 journal February 2017
Visualizing the Reaction Cycle in an Iron(II)- and 2-(Oxo)-glutarate-Dependent Hydroxylase journal September 2017
NRVS Studies of the Peroxide Shunt Intermediate in a Rieske Dioxygenase and Its Relation to the Native Fe II O 2 Reaction journal April 2018
Two Distinct Mechanisms for C–C Desaturation by Iron(II)- and 2-(Oxo)glutarate-Dependent Oxygenases: Importance of α-Heteroatom Assistance journal April 2018
Nuclear Resonance Vibrational Spectroscopy Definition of O 2 Intermediates in an Extradiol Dioxygenase: Correlation to Crystallography and Reactivity journal November 2018
O 2 Activation by Nonheme Fe II α-Ketoglutarate-Dependent Enzyme Variants: Elucidating the Role of the Facial Triad Carboxylate in FIH journal August 2018
Spectroscopic and Electronic Structure Study of ETHE1: Elucidating the Factors Influencing Sulfur Oxidation and Oxygenation in Mononuclear Nonheme Iron Enzymes journal October 2018
Crystal structure of isopenicillin N synthase is the first from a new structural family of enzymes journal June 1995
Structural insight into antibiotic fosfomycin biosynthesis by a mononuclear iron enzyme journal July 2005
Crystal structure of the non-haem iron halogenase SyrB2 in syringomycin biosynthesis journal March 2006
Elucidation of the Fe(iv)=O intermediate in the catalytic cycle of the halogenase SyrB2 journal July 2013
The structural basis of cephalosporin formation in a mononuclear ferrous enzyme
  • Valegård, Karin; van Scheltinga, Anke C. Terwisscha; Dubus, Alain
  • Nature Structural & Molecular Biology, Vol. 11, Issue 1 https://doi.org/10.1038/nsmb712
journal December 2003
Stepwise ring closure in penicillin biosynthesis. Intitial β-lactam formation journal January 1984
Cysteine dioxygenase: structure and mechanism journal January 2007
The biosynthesis of penicillins and cephalosporins journal January 1988
From The Cover: SyrB2 in syringomycin E biosynthesis is a nonheme FeII  -ketoglutarate- and O2-dependent halogenase journal July 2005
Substrate positioning controls the partition between halogenation and hydroxylation in the aliphatic halogenase, SyrB2 journal October 2009
Definition of the intermediates and mechanism of the anticancer drug bleomycin using nuclear resonance vibrational spectroscopy and related methods journal December 2010
 -Frontier molecular orbitals in S = 2 ferryl species and elucidation of their contributions to reactivity journal August 2012
Evaluation of a concerted vs. sequential oxygen activation mechanism in α-ketoglutarate–dependent nonheme ferrous enzymes journal February 2020
Direct coordination of pterin to Fe II enables neurotransmitter biosynthesis in the pterin-dependent hydroxylases journal April 2021
Characterization of Patient Mutations in Human Persulfide Dioxygenase (ETHE1) Involved in H2S Catabolism journal December 2012
Catalytic Mechanisms of Fe(II)- and 2-Oxoglutarate-dependent Oxygenases journal July 2015
Ethylmalonic Encephalopathy Is Caused by Mutations in ETHE1, a Gene Encoding a Mitochondrial Matrix Protein journal February 2004
FIH-1: a novel protein that interacts with HIF-1alpha and VHL to mediate repression of HIF-1 transcriptional activity journal October 2001
Phonon Density of States Measured by Inelastic Nuclear Resonant Scattering journal May 1995
The 2-His-1-Carboxylate Facial Triad - An Emerging Structural Motif in Mononuclear Non-Heme Iron(II) Enzymes journal December 1997
Crystal Structure of Naphthalene Dioxygenase: Side-on Binding of Dioxygen to Iron journal February 2003
Crystal Structures of Fe2+ Dioxygenase Superoxo, Alkylperoxo, and Bound Product Intermediates journal April 2007
Ring-Cleaving Dioxygenases with a Cupin Fold journal January 2012
Tetrahydropterin-Dependent Amino Acid Hydroxylases journal June 1999