Spectroscopic evidence for and characterization of a trinuclear ferroxidase center in bacterial ferritin from Desulfovibrio vulgaris Hildenborough.

Ferritins are ubiquitous and can be found in practically all organisms that utilize Fe. They are composed of 24 subunits forming a hollow sphere with an inner cavity of ~80 Å in diameter. The main function of ferritin is to oxidize the cytotoxic Fe(2+) ions and store the oxidized Fe in the inner cavity. It has been established that the initial step of rapid oxidation of Fe(2+) (ferroxidation) by H-type ferritins, found in vertebrates, occurs at a diiron binding center, termed the ferroxidase center. In bacterial ferritins, however, X-ray crystallographic evidence and amino acid sequence analysis revealed a trinuclear Fe binding center comprising a binuclear Fe binding center (sites A and B), homologous to the ferroxidase center of H-type ferritin, and an adjacent mononuclear Fe binding site (site C). In an effort to obtain further evidence supporting the presence of a trinuclear Fe binding center in bacterial ferritins and to gain information on the states of the iron bound to the trinuclear center, bacterial ferritin from Desulfovibrio vulgaris (DvFtn) and its E130A variant was loaded with substoichiometric amounts of Fe(2+), and the products were characterized by Mössbauer and EPR spectroscopy. Four distinct Fe species were identified: a paramagnetic diferrous species, a diamagnetic diferrous species, a mixed valence Fe(2+)Fe(3+) species, and a mononuclear Fe(2+) species. The latter three species were detected in the wild-type DvFtn, while the paramagnetic diferrous species was detected in the E130A variant. These observations can be rationally explained by the presence of a trinuclear Fe binding center, and the four Fe species can be properly assigned to the three Fe binding sites. Further, our spectroscopic data suggest that (1) the fully occupied trinuclear center supports an all ferrous state, (2) sites B and C are bridged by a μ-OH group forming a diiron subcenter within the trinuclear center, and (3) this subcenter can afford both a mixed valence Fe(2+)Fe(3+) state and a diferrous state. Mechanistic insights provided by these new findings are discussed and a minimal mechanistic scheme involving O-O bond cleavage is proposed.

[1]  Elizabeth C. Theil Ferritin protein nanocages use ion channels, catalytic sites, and nucleation channels to manage iron/oxygen chemistry. , 2011, Current opinion in chemical biology.

[2]  M. Murphy,et al.  Iron core mineralisation in prokaryotic ferritins. , 2010, Biochimica et biophysica acta.

[3]  S. Andrews The Ferritin-like superfamily: Evolution of the biological iron storeman from a rubrerythrin-like ancestor. , 2010, Biochimica et biophysica acta.

[4]  R. Crichton,et al.  X-ray structures of ferritins and related proteins. , 2010, Biochimica et biophysica acta.

[5]  F. Bou-Abdallah,et al.  The iron redox and hydrolysis chemistry of the ferritins. , 2010, Biochimica et biophysica acta.

[6]  Elizabeth C. Theil,et al.  NMR reveals pathway for ferric mineral precursors to the central cavity of ferritin , 2009, Proceedings of the National Academy of Sciences.

[7]  Jennifer K. Schwartz,et al.  Spectroscopic definition of the ferroxidase site in M ferritin: comparison of binuclear substrate vs cofactor active sites. , 2008, Journal of the American Chemical Society.

[8]  Wilfred R. Hagen,et al.  Crystal structure of the ferritin from the hyperthermophilic archaeal anaerobe Pyrococcus furiosus , 2007, JBIC Journal of Biological Inorganic Chemistry.

[9]  J. Tatur,et al.  The dinuclear iron‐oxo ferroxidase center of Pyrococcus furiosus ferritin is a stable prosthetic group with unexpectedly high reduction potentials , 2005, FEBS letters.

[10]  M. Sawaya,et al.  Crystal structures of a tetrahedral open pore ferritin from the hyperthermophilic archaeon Archaeoglobus fulgidus. , 2005, Structure.

[11]  E. Solomon,et al.  Circular dichroism and magnetic circular dichroism studies of the biferrous form of the R2 subunit of ribonucleotide reductase from mouse: comparison to the R2 from Escherichia coli and other binuclear ferrous enzymes. , 2003, Biochemistry.

[12]  M. A. Carrondo,et al.  The nature of the di-iron site in the bacterioferritin from Desulfovibrio desulfuricans , 2003, Nature Structural Biology.

[13]  Elizabeth C. Theil,et al.  Stoichiometric production of hydrogen peroxide and parallel formation of ferric multimers through decay of the diferric-peroxo complex, the first detectable intermediate in ferritin mineralization. , 2002, Biochemistry.

[14]  G. Papaefthymiou,et al.  mu-1,2-Peroxobridged di-iron(III) dimer formation in human H-chain ferritin. , 2002, The Biochemical journal.

[15]  Elizabeth C. Theil,et al.  Exchange coupling constant J of peroxodiferric reaction intermediates determined by Mössbauer spectroscopy , 2002, JBIC Journal of Biological Inorganic Chemistry.

[16]  P. Arosio,et al.  Is hydrogen peroxide produced during iron(II) oxidation in mammalian apoferritins? , 2001, Biochemistry.

[17]  T. J. Stillman,et al.  The high-resolution X-ray crystallographic structure of the ferritin (EcFtnA) of Escherichia coli; comparison with human H ferritin (HuHF) and the structures of the Fe(3+) and Zn(2+) derivatives. , 2001, Journal of molecular biology.

[18]  Elizabeth C. Theil,et al.  A short Fe-Fe distance in peroxodiferric ferritin: control of Fe substrate versus cofactor decay? , 2000, Science.

[19]  P. Harrison,et al.  Mineralization in ferritin: an efficient means of iron storage. , 1999, Journal of structural biology.

[20]  Elizabeth C. Theil,et al.  Crystal structure of bullfrog M ferritin at 2.8 Å resolution: analysis of subunit interactions and the binuclear metal center , 1999, JBIC Journal of Biological Inorganic Chemistry.

[21]  M. Quail,et al.  Stages in iron storage in the ferritin of Escherichia coli (EcFtnA): analysis of Mössbauer spectra reveals a new intermediate. , 1999, Biochemistry.

[22]  Elizabeth C. Theil,et al.  The ferroxidase reaction of ferritin reveals a diferric mu-1,2 bridging peroxide intermediate in common with other O2-activating non-heme diiron proteins. , 1999, Biochemistry.

[23]  M. Quail,et al.  How the presence of three iron binding sites affects the iron storage function of the ferritin (EcFtnA) of Escherichia coli , 1998, FEBS letters.

[24]  Elizabeth C. Theil,et al.  Direct spectroscopic and kinetic evidence for the involvement of a peroxodiferric intermediate during the ferroxidase reaction in fast ferritin mineralization. , 1998, Biochemistry.

[25]  A. Gräslund,et al.  EPR study of the mixed-valent diiron sites in mouse and herpes simplex virus ribonucleotide reductases. Effect of the tyrosyl radical on structure and reactivity of the diferric center. , 1997, Biochemistry.

[26]  D. Rice,et al.  Comparison of the three-dimensional structures of recombinant human H and horse L ferritins at high resolution. , 1997, Journal of molecular biology.

[27]  J. Hajdu,et al.  Crystal structure of reduced protein R2 of ribonucleotide reductase: the structural basis for oxygen activation at a dinuclear iron site. , 1996, Structure.

[28]  P. Harrison,et al.  The ferritins: molecular properties, iron storage function and cellular regulation. , 1996, Biochimica et biophysica acta.

[29]  A. Gräslund,et al.  EPR and multi-field magnetisation of reduced forms of the binuclear iron centre in ribonucleotide reductase from mouse , 1996, JBIC Journal of Biological Inorganic Chemistry.

[30]  Edward I. Solomon,et al.  Circular Dichroism and Magnetic Circular Dichroism Studies of the Fully Reduced Binuclear Non-Heme Iron Active Site in the Escherichia coli R2 Subunit of Ribonucleoside Diphosphate Reductase , 1995 .

[31]  H. Eklund,et al.  Di-iron-carboxylate proteins. , 1995, Current opinion in structural biology.

[32]  M. Quail,et al.  Iron(II) oxidation by H chain ferritin: evidence from site-directed mutagenesis that a transient blue species is formed at the dinuclear iron center. , 1995, Biochemistry.

[33]  Stephen J. Lippard,et al.  Kinetic and spectroscopic characterization of intermediates and component interactions in reactions of methane monooxygenase from Methylococcus capsulatus (Bath) , 1995 .

[34]  S. Lippard,et al.  Geometry of the soluble methane monooxygenase catalytic diiron center in two oxidation states. , 1995, Chemistry & biology.

[35]  N. Gupta,et al.  Recombinant Desulfovibrio vulgaris rubrerythrin. Isolation and characterization of the diiron domain. , 1995, Biochemistry.

[36]  S. Kuprin,et al.  Electron Paramagnetic Resonance Study of the Mixed-Valent Diiron Center in Escherichia coli Ribonucleotide Reductase Produced by Reduction of Radical-Free Protein R2 at 77 K , 1994 .

[37]  J. Martin Bollinger,et al.  Mechanism of Assembly of the Tyrosyl Radical-Diiron(III) Cofactor of E. Coli Ribonucleotide Reductase: 1. Moessbauer Characterization of the Diferric Radical Precursor , 1994 .

[38]  P. Artymiuk,et al.  Direct observation of the iron binding sites in a ferritin , 1994, FEBS letters.

[39]  F. Frolow,et al.  Structure of a unique twofold symmetric haem-binding site , 1994, Nature Structural Biology.

[40]  M. Atta,et al.  EPR Studies of Mixed-Valent [FeIIFeIII] Clusters formed in the R2 Subunit of Ribonucleotide Reductase from Mouse or Herpes Simplex Virus: Mild Chemical Reduction of the Diferric Centers , 1994 .

[41]  P. Harrison,et al.  Overproduction, purification and characterization of the Escherichia coli ferritin. , 1993, European journal of biochemistry.

[42]  Edward I. Solomon,et al.  Pulsed EPR Studies of Mixed Valent [Fe(II)Fe(III)] Forms of Hemerythrin and Methane Monooxygenase: Evidence for a Hydroxide Bridge , 1993 .

[43]  Brian G. Fox,et al.  Moessbauer, EPR, and ENDOR studies of the hydroxylase and reductase components of methane monooxygenase from Methylosinus trichosporium OB3b , 1993 .

[44]  K. Hagen,et al.  Diiron(II) .mu.-aqua bis(.mu.-carboxylato) models of reduced dinuclear non-heme iron sites in proteins , 1992 .

[45]  J. Bollinger,et al.  Mechanism of assembly of the tyrosyl radical-dinuclear iron cluster cofactor of ribonucleotide reductase. , 1991, Science.

[46]  L. Que,et al.  A mixed valence form of the iron cluster in the B2 protein of ribonucleotide reductase from Escherichia coli. , 1991, Biochemical and biophysical research communications.

[47]  L. Sieker,et al.  Structures of deoxy and oxy hemerythrin at 2.0 A resolution. , 1991, Journal of molecular biology.

[48]  W. V. Shaw,et al.  Solving the structure of human H ferritin by genetically engineering intermolecular crystal contacts , 1991, Nature.

[49]  P. V. von Hippel,et al.  Calculation of protein extinction coefficients from amino acid sequence data. , 1989, Analytical biochemistry.

[50]  M. Hendrich,et al.  Integer-spin electron paramagnetic resonance of iron proteins. , 1989, Biophysical journal.

[51]  P. Harrison,et al.  Mössbauer spectroscopic study of the initial stages of iron-core formation in horse spleen apoferritin: evidence for both isolated Fe(III) atoms and oxo-bridged Fe(III) dimers as early intermediates. , 1989, Biochemistry.

[52]  B. Fox,et al.  Evidence for a mu-oxo-bridged binuclear iron cluster in the hydroxylase component of methane monooxygenase. Mössbauer and EPR studies. , 1988, The Journal of biological chemistry.

[53]  J. Moura,et al.  Isolation and characterization of rubrerythrin, a non-heme iron protein from Desulfovibrio vulgaris that contains rubredoxin centers and a hemerythrin-like binuclear iron cluster. , 1988, Biochemistry.

[54]  Karl Wieghardt,et al.  Synthesis and characterization of (.mu.-hydroxo)bis(.mu.-acetato)diiron(II) and (.mu.-oxo)bis(.mu.-acetato)diiron(III) 1,4,7-trimethyl-1,4,7-triazacyclononane complexes as models for binuclear iron centers in biology; properties of the mixed valence diiron(II,III) species , 1987 .

[55]  James C. Davis,et al.  Spectroscopic and magnetic studies of the purple acid phosphatase from bovine spleen , 1987 .

[56]  E. Solomon,et al.  Spectroscopic studies of the binuclear ferrous active site of deoxyhemerythrin: coordination number and probable bridging ligands for the native and ligand bound forms , 1987 .

[57]  L. Que,et al.  1H NMR probes of the binuclear iron cluster in hemerythrin , 1986 .

[58]  R. Cammack,et al.  ESR studies of protein A of the soluble methane monooxygenase from Methylococcus capsulatus (Bath) , 1986 .

[59]  P. Aisen,et al.  Physical characterization of two-iron uteroferrin. Evidence for a spin-coupled binuclear iron cluster. , 1983, The Journal of biological chemistry.

[60]  B. Muhoberac,et al.  EPR spectroscopy of semi-methemerythrin. , 1980, Biochimica et biophysica acta.

[61]  R. Hausinger,et al.  Mössbauer and EPR studies of desulforedoxin from Desulfovibrio gigas. , 1980, The Journal of biological chemistry.

[62]  R. Zimmermann,et al.  High‐field Mössbauer studies of reduced protocatechuate 3,4‐dioxygenase , 1978 .

[63]  M. Sass,et al.  ENZYME ACTIVITY AS AN INDICATOR OF RED CELL AGE. , 1964, Clinica chimica acta; international journal of clinical chemistry.

[64]  C. Krebs,et al.  Demonstration of peroxodiferric intermediate in M-ferritin ferroxidase reaction using rapid freeze-quench Mössbauer, resonance Raman, and XAS spectroscopies. , 2002, Methods in enzymology.

[65]  M. Quail,et al.  Metal binding at the active centre of the ferritin of Escherichia coli (EcFtnA). A Mössbauer spectroscopic study , 2000 .

[66]  S. Andrews Iron storage in bacteria. , 1998, Advances in microbial physiology.

[67]  B. Fox,et al.  Integer-spin EPR studies of the fully reduced methane monooxygenase hydroxylase component , 1990 .

[68]  D. S. Fischer,et al.  A SIMPLE SERUM IRON METHOD USING THE NEW SENSITIVE CHROMOGEN TRIPYRIDYL-S-TRIAZINE. , 1964, Clinical chemistry.