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Emile L Bominaar

Publications and source records attributed to Emile L Bominaar.

At least 19 recordsLinked to original sources
PubMed2006

Chemical and spectroscopic evidence for an FeV-oxo complex.

Iron(V)-oxo species have been proposed as key reactive intermediates in the catalysis of oxygen-activating enzymes and synthetic catalysts. Here, we report the synthesis of [Fe(TAML)(O)]- in nearly quantitative yield, where TAML is a macrocyclic tetraamide ligand. Mass spectrometry, Mössbauer, electron paramagnetic resonance, and x-ray absorption spectroscopies, as well as reactivity studies and density functional theory calculations show that this long-lived (hours at -60 degrees C) intermediate is a spin S = 1/2 iron(V)-oxo complex. Iron-TAML systems have proven to be efficient catalysts in the decomposition of numerous pollutants by hydrogen peroxide, and the species we characterized is a likely reactive intermediate in these reactions.

Catalysis↗
PubMed2006

Structure and magnetic properties of a non-heme diiron complex singly bridged by a hydroxo group.

The synthesis of the first singly bridged non-heme diiron complex with a mu-hydroxo bridging ligand, [{(salten)Fe}2(OH)][B(C6H5)4].(CH3CN)x.(H2O)y (1) [H2salten = 4-azaheptane-1,7-bis(salicylideneiminate)], is reported. The complex has been characterized with X-ray crystallography, FTIR, magnetic susceptibility measurements, and Mössbauer spectroscopy. The data have been compared with the results of DFT calculations on both 1 and a model with an unsupported mu-oxo bridge (2) to verify the formulation of the complex as a mu-hydroxo-bridged species. The X-ray structure [Fe-O(H) = 1.997(1) A and Fe-O(H)-Fe = 159 degrees ] is consistent with the DFT-optimized geometry of 1 [Fe-O(H) = 2.02 A and Fe-O(H)-Fe = 151 degrees ]; the Fe-O(H) distance in 1 is about 0.2 A longer than the Fe-O separations in the optimized geometry of 2 (1.84 A) and in the crystallographic structures of diiron(III) compounds with unsupported mu-oxo bridges (1.77-1.81 A). The formulation of 1 as a hydroxo-bridged compound is also supported by the presence of an O-H stretch band in the FTIR spectrum of the complex. The magnetic susceptibility measurements of 1 reveal antiferromagnetic exchange (J = 42 cm(-1) and H(ex) = JS(1).S(2)). Nearly the same J value is obtained by analyzing the temperature dependence of the Mössbauer spectra (J = 43 cm(-1); other parameters: delta = 0.49 mm s(-1), DeltaE(Q) = -0.97 mm s(-1), and eta = 0.45 at 4.2 K). The experimental J values and Mössbauer parameters agree very well with those obtained from DFT calculations for the mu-hydroxo-bridged compound (J = 46 cm(-1), delta = 0.48 mm s(-1), DeltaE(Q) = -1.09 mm s(-1), and eta = 0.35). The exchange coupling constant in 1 is distinctly different from the value J approximately 200 cm(-1) calculated for the optimized mu-oxo-bridged species, 2. The increased exchange-coupling in 2 arises primarily from a decrease in the Fe-O bond length.

Cross-Linking Reagents↗
PubMed2006

Mössbauer and computational study of an N2-bridged diiron diketiminate complex: parallel alignment of the iron spins by direct antiferromagnetic exchange with activated dinitrogen.

This work reports Mössbauer and DFT studies of the diiron-N2 complex LMeFeNNFeLMe (L = beta-diketiminate), 1a. Complex 1a, formally diiron(I), has a system spin S = 3 with an isolated MS = +/-3 quasi-doublet as a ground state; the MS = +/-2 doublet is >100 cm-1 higher in energy. Complex 1a exhibits at 4.2 K a large, positive magnetic hyperfine field, Bint = +68.1 T, and an effective g value of 16 +/- 2 along the easy magnetization axis of the ground doublet; this value is significantly larger than the spin-only value (g = 12). These results have been rationalized by DFT calculations, which show that each Fe site donates significant electron density into the pi* orbitals of dinitrogen, resulting in a configuration best described as two high-spin FeII (Sa = Sb = 2) bridged by triplet N22- (Sc = 1). In this description the minority spin electron of each iron is accommodated by two nonbonding, closely spaced 3d orbitals, z2 and yz (z is perpendicular to the diketiminate planes, x is along the Fe...Fe vector). Spin-orbit coupling between these orbital states generates a large unquenched orbital momentum along the iron-iron vector. The S = 3 ground state of 1a results from strong antiferromagnetic direct exchange couplings of the Fe spins (Sa = Sb = 2) to the N22- spin (Sc = 1) and can be formulated as ((Sa,Sb)Sab = 4, Sc = 1), S = 3>; H = J(Sa + Sb).Sc with J approximately 3500 cm-1.

Iron↗
PubMed2006

Nonheme oxoiron(IV) complexes of tris(2-pyridylmethyl)amine with cis-monoanionic ligands.

Treatment of [Fe(IV)(O)(TPA)(NCMe)](CF3SO3)2 [TPA, N,N,N-tris(2-pyridylmethyl)amine] with 3 equiv of NR4X (X = CF3CO2, Cl, or Br) in MeCN at -40 degrees C affords a series of metastable [Fe(IV)(O)(TPA)(X)]+ complexes. Some characteristic features of the S = 1 oxoiron(IV) unit are quite insensitive to the ligand substitution in the equatorial plane, namely, the Fe-O distances (1.65-1.66 A), the energy ( approximately 7114.5 eV) and intensity [25(2) units] of the 1s-to-3d transition in the X-ray absorption spectra, and the Mössbauer isomer shifts (0.01-0.06 mm.s(-1)) and quadrupole splittings (0.92-0.95 mm.s(-1)). The coordination of the anionic X ligand, however, is evidenced by red shifts of the characteristic near-IR ligand-field bands (720-800 nm) and spectroscopic observation of the bound anion by (19)F NMR for X = CF3CO2 and by EXAFS analysis for X = Cl (r(Fe-Cl) = 2.29 A) and Br (r(Fe-Br) = 2.43 A). Density functional theory calculations yield Mössbauer parameters and bond lengths in good agreement with the experimental data and produce excited-state energies that follow the trend observed in the ligand-field bands. Despite mitigating the high effective charge of the iron(IV) center, the substitution of the MeCN ligand with monoanionic ligands X- decreases the thermal stability of [Fe(IV)(O)(TPA)]2+ complexes. These anion-substituted complexes model the cis-X-Fe(IV)=O units proposed in the mechanisms of oxygen-activating nonheme iron enzymes.

Anions↗
PubMed2006

High-valent iron complexes with tetraamido macrocyclic ligands: structures, Mössbauer spectroscopy, and DFT calculations.

Iron complexes of tetraamido macrocyclic ligands (TAML) are unique synthetic oxidation catalysts. In general, the central Fe(III) ion (S=3/2) is surrounded by four, almost planar, deprotonated amide-N sigma-donors although the full suite with new generation systems includes some substitution of amides with related donor functionalities. Oxidation under different conditions affords a variety of high-valent forms of iron-TAMLs. This review provides a summary and discussion of structural and spectroscopic features of complexes oxidized by one equivalent above the ferric state. These comprise Fe(IV)-TAML high spin (S=2) and intermediate spin (S=1) systems, wherein the oxidation equivalent can be taken from the metal (Fe(IV)) or the ligand (TAML radical-cation Fe(III)), and coupled spin (S=0) systems of mu-oxoiron(IV) dimers. The discussion is principally based on data obtained by X-ray crystallography, Mössbauer spectroscopy, and density functional theory calculations.

Iron↗
PubMed2005

A thiolate-ligated nonheme oxoiron(IV) complex relevant to cytochrome P450.

Thiolate-ligated oxoiron(IV) centers are postulated to be the key oxidants in the catalytic cycles of oxygen-activating cytochrome P450 and related enzymes. Despite considerable synthetic efforts, chemists have not succeeded in preparing an appropriate model complex. Here we report the synthesis and spectroscopic characterization of [FeIV(O)(TMCS)]+ where TMCS is a pentadentate ligand that provides a square pyramidal N4(SR)apical, where SR is thiolate, ligand environment about the iron center, which is similar to that of cytochrome P450. The rigidity of the ligand framework stabilizes the thiolate in an oxidizing environment. Reactivity studies suggest that thiolate coordination favors hydrogen-atom abstraction chemistry over oxygen-atom transfer pathways in the presence of reducing substrates.

Catalysis↗
PubMed2005

Initial members of the family of molecular mid-valent high-nuclearity iron nitrides: [Fe4N2X10]4- and [Fe10N8X12]5- (X = Cl-, Br-).

Current theoretical and experimental evidence points toward X = N as the identity of the interstitial atom in the [MoFe7S9X] core of the iron-molybdenum cofactor cluster of nitrogenase. This atom functions with mu6 bridging multiplicity to six iron atoms and, if it is nitrogen as nitride, raises a question as to the existence of a family of molecular iron nitrides of higher nuclearity than known dinuclear Fe(III,IV) species with linear [Fe-N-Fe]5+,4+ bridges. This matter has been initially examined by variation of reactant stoichiometry in the self-assembly systems [FeX4]1-/(Me3Sn)3N (X = Cl-, Br-) in acetonitrile. A 2:1 mol ratio affords [Fe4N2Cl10]4- (1), isolated as the Et4N+ salt (72%). This cluster has idealized C2h symmetry with a planar antiferromagnetically coupled [Fe(III)4(mu3-N)2]6+ core containing an Fe2N2 rhombus to which are attached two FeCl3 units. DFT calculations have been performed to determine the dominant magnetic exchange pathway. An 11:8 mol ratio leads to [Fe10N8Cl12]5- (3) as the Et4N+ salt (37%). The cluster possesses idealized D2h symmetry and is built of 15 edge- and vertex-shared rhomboids involving two mu3-N and six mu4-N bridging atoms, and incorporates two of the core units of 1. Four FeN2Cl2 and four FeN3Cl sites are tetrahedral and two FeN5 sites are trigonal pyramidal. The cluster is mixed-valence (9Fe(III) + Fe(IV)); a discrete Fe(IV) site was not detected by crystallography or Mössbauer spectroscopy. The corresponding clusters [Fe4N2Br10]4- and [Fe10N8Br12]5- are isostructural with 1 and 3, respectively. Future research is directed toward defining the scope of the family of molecular iron nitrides.

Bromides↗
PubMed2005

Mössbauer, electron paramagnetic resonance, and crystallographic characterization of a high-spin Fe(I) diketiminate complex with orbital degeneracy.

The synthesis and X-ray structure of the low-coordinate, high-spin Fe(I) compound LFe(HCCPh) (L = HC(C[tBu]N[2,6-diisopropylphenyl])2]-), 1, are reported. Low-temperature Mössbauer and electron paramagnetic resonance (EPR) spectroscopies reveal that the electronic ground state is a Kramers doublet with uniaxial magnetic properties (effective g values g(x) = 8.9, 0 < g(y), g(z) < 0.3) that is well isolated from the excited states. The observation of a large and positive magnetic hyperfine field, B(int) = +68.8(3) T, demonstrates that the orbital angular moment is essentially unquenched along one spatial direction. Relaxation rates obtained from variable-temperature Mössbauer spectra were fit to an Orbach process, yielding delta = 130-190 cm(-1) for the energy gap ("zero-field splitting") between the two Kramers doublets of the S = 3/2 multiplet. Density functional theory (DFT) and time-dependent DFT calculations give insight into the electronic structures of the ground and excited states. The oxidation state of the iron and the bond order of the phenylacetylene ligand in complex 1 are analyzed using DFT, showing a substantial back-bonding interaction. Spin-orbit coupling acting in the subspace of quasi-degenerate z2 and yz orbitals provides a consistent description of both the zero-field splitting and magnetic hyperfine parameters that fits the EPR and Mössbauer data for 1. Interestingly, the spin-orbit coupling involves the same two orbitals (z2, yz) as in the analogous three-coordinate Fe(II) compounds, because back-bonding significantly lowers the energy of the xy orbital, making it the lowest doubly occupied d orbital. Despite the different oxidation state and different number of atoms in the first coordination sphere, the electronic structure of LFe(I)(HCCPh) can be interpreted similarly to that of three-coordinate Fe(II) diketiminate complexes, but with a substantial effect of back-bonding. To our knowledge, this is the first detailed Mössbauer and EPR study of a structurally characterized high-spin Fe(I) complex.

Journal Article↗
PubMed2005

Synthesis, structure, and spectroscopy of an oxodiiron(II) complex.

Bridging oxo species are important in the synthetic and biological chemistry of iron, and are found with iron oxidation states from +2 to +4. We report the first oxodiiron(II) complex that has been crystallographically characterized. It has been examined by NMR, IR, and Mössbauer spectroscopies as well as density-functional calculations.

Iron Compounds↗
PubMed2004

Theoretical analysis of the Jahn-Teller distortions in tetrathiolato iron(II) complexes.

Crystallographic studies of [Fe(SR)(4)](2-) (R is an alkyl or aryl residue) have shown that the Fe(II)S(4) cores of these complexes have (pseudo) D2d symmetry. Here we analyze the possibility that these structures result from a Jahn-Teller (JT) distortion that arises from the e(3z(2) - r(2), x(2) - y(2)) orbital ground state of Fe(II) in T(d)symmetry. Special attention is paid to the influence of the second-nearest neighbors of Fe, which lowers the symmetry and reduces the full JT effect to a smaller, pseudo JT effect (PJT). To estimate the size of the PJT distortion, we have determined the vibronic parameters and orbital state energies for a number of [Fe(SR)(4)](2-) models using density functional theory (DFT). Subsequently, this information is used for evaluating the adiabatic potential surfaces in the space of the JT-active coordinates of the FeS(4) moiety. The surfaces reveal that the JT effect of Fe(II) is completely quenched by the tetrathiolate coordination.

Journal Article↗
PubMed2004

Theoretical analysis of the three-dimensional structure of tetrathiolato iron complexes.

The three-dimensional structures of a number of [M(SR)(4)](n-) complexes, where M is a 3d transition metal and R is an alkyl or aryl group, have been analyzed using density functional theory (DFT). Special attention is paid to the Fe(II)/Fe(III) mimics of rubredoxin. The Fe(II) model complex [Fe(SCH(3))(4)](2-) has an equilibrium conformation with D2d symmetry. The DFT energy has been decomposed into contributions for ligand-ligand and metal-ligand interactions. The latter contribution is analyzed with the angular overlap model (AOM) and constitutes the dominant stereospecific interaction in the Fe(II) complex. The sulfur lone-pair electrons exert anisotropic pi interactions on the 3d(6) shell of Fe(II), which are controlled by the torsion angles, omega(i), for the rotations of the S(i)-C(beta) bonds around the Fe-S(i) axes. In contrast, the pi interactions acting on the high-spin 3d(5) shell of Fe(III) are isotropic. As a consequence, the stereochemistry of the Fe(III) complexes is determined by the Coulomb repulsions between the ligands and has S(4) symmetry. The electrostatic repulsions between the lone pairs of the sulfurs are an essential component of the ligand-ligand interaction. The lone-pair repulsions distort the 90 degree angle SFeS' angles (delta + delta(t)) and give rise to a correlation between delta and omega, which is confirmed by crystallographic data. Both the Fe(II) and Fe(III) complexes exhibit structural bistability due to the presence of low-lying equilibrium conformations with S(4) symmetry in which the complex can be trapped by the crystalline host.

Algorithms↗
PubMed2004

A structural and Mössbauer study of complexes with Fe(2)(micro-O(H))(2) cores: stepwise oxidation from Fe(II)(micro-OH)(2)Fe(II) through Fe(II)(micro-OH)(2)Fe(III) to Fe(III)(micro-O)(micro-OH)Fe(III).

Dinuclear non-heme iron clusters containing oxo, hydroxo, or carboxylato bridges are found in a number of enzymes involved in O(2) metabolism such as methane monooxygenase, ribonucleotide reductase, and fatty acid desaturases. Efforts to model structural and/or functional features of the protein-bound clusters have prompted the preparation and study of complexes that contain Fe(micro-O(H))(2)Fe cores. Here we report the structures and spectroscopic properties of a family of diiron complexes with the same tetradentate N4 ligand in one ligand topology, namely [(alpha-BPMCN)(2)Fe(II)(2)(micro-OH)(2)](CF(3)SO(3))(2) (1), [(alpha-BPMCN)(2)Fe(II)Fe(III)(micro-OH)(2)](CF(3)SO(3))(3) (2), and [(alpha-BPMCN)(2)Fe(III)(2)(micro-O)(micro-OH)](CF(3)SO(3))(3) (3) (BPMCN = N,N'-dimethyl-N,N'-bis(2-pyridylmethyl)-trans-1,2-diaminocyclohexane). Stepwise one-electron oxidations of 1 to 2 and then to 3 demonstrate the versatility of the Fe(micro-O(H))(2)Fe diamond core to support a number of oxidation states with little structural rearrangement. Insight into the electronic structure of 1, 2', and 3 has been obtained from a detailed Mössbauer investigation (2' differs from 2 in having a different complement of counterions). Mixed-valence complex 2' is ferromagnetically coupled, with J = -15 +/- 5 cm(-)(1) (H = JS(1).S(2)). For the S = (9)/(2) ground multiplet we have determined the zero-field splitting parameter, D(9/2) = -1.5 +/- 0.1 cm(-)(1), and the hyperfine parameters of the ferric and ferrous sites. For T < 12 K, the S = (9)/(2) multiplet has uncommon relaxation behavior. Thus, M(S) = -(9)/(2) <--> M(S) = +(9)/(2) ground state transition is slow while deltaM(S) = +/-1 transitions between equally signed M(S) levels are fast on the time scale of Mössbauer spectroscopy. Below 100 K, complex 2' is trapped in the Fe(1)(III)Fe(2)(II) ground state; above this temperature, it exhibits thermally assisted electron hopping into the state Fe(1)(II)Fe(2)(III). The temperature dependence of the isomer shifts was corrected for second-order Doppler shift, obtained from the study of diferrous 1. The resultant true shifts were analyzed in a two-state hopping model. The diferric complex 3 is antiferromagnetically coupled with J = 90 +/- 15 cm(-)(1), estimated from a variable-temperature Mössbauer analysis.

Binding Sites↗
PubMed2004

Antisymmetric exchange in [2Fe-2S]1+ clusters: EPR of the Rieske protein from Thermus thermophilus at pH 14.

[2Fe-2S] clusters found in the xanthine oxidase family of proteins exhibit an S = 1/2 EPR feature, called signal II, for which one g-value is significantly above g = 2.0. The g-values of signal II cannot be explained with the standard spin coupling model that has been so successful in describing the g = 1.94 signals of [2Fe-2S] ferredoxins. We have studied the EPR spectra of the Rieske protein from Thermus thermophilus at pH 14 and observed a signal II-type EPR spectrum, with g-values at 1.81, 1.94, and 2.14. It is shown that the g-values of signal II can be explained by including an antisymmetric exchange term, d.S1xS2, in the spin Hamiltonian. The presence of this term is sensed by EPR if the isotropic exchange coupling constant J is sufficiently small. For the Rieske protein we determined J = 43 cm-1 which is at least 4 times smaller than the J values reported for [2Fe-2S] clusters that yield standard g = 1.94 signals.

Electron Spin Resonance Spectroscopy↗
PubMed2003

Reversal of cyanide inhibition of cytochrome c oxidase by the auxiliary substrate nitric oxide: an endogenous antidote to cyanide poisoning?

Nitric oxide (NO) is shown to overcome the cyanide inhibition of cytochrome c oxidase in the presence of excess ferrocytochrome c and oxygen. Addition of NO to the partially reduced cyanide-inhibited form of the bovine enzyme is shown by electron paramagnetic resonance spectroscopy to result in substitution of cyanide at ferriheme a3 by NO with reduction of the heme. The resulting nitrosylferroheme a3 is a 5-coordinate structure, the proximal bond to histidine having been broken. NO does not simply act as a reversibly bound competitive inhibitor but is an auxiliary substrate consumed in a catalytic cycle along with ferrocytochrome c and oxygen. The implications of this observation with regard to estimates of steady-state NO levels in vivo is discussed. Given the multiple sources of NO available to mitochondria, the present results appear to explain in part some of the curious biomedical observations reported by other laboratories; for example, the kidneys of cyanide poisoning victims surprisingly exhibit no significant irreversible damage, and lethal doses of potassium cyanide are able to inhibit cytochrome c oxidase activity by only approximately 50% in brain mitochondria.

Animals↗
PubMed2003

Density functional study of the electric hyperfine interactions and the redox-structural correlations in the cofactor of nitrogenase. Analysis of general trends in (57)Fe isomer shifts.

The influence of the interstitial atom, X, discovered in a recent crystallographic study of the MoFe protein of nitrogenase, on the electric hyperfine interactions of (57)Fe has been investigated with density functional theory. A semiempirical theory for the isomer shift, delta, is formulated and applied to the cofactor. The values of delta for the relevant redox states of the cofactor are predicted to be higher in the presence of X than in its absence. The analysis strongly suggests a [Mo(4+)4Fe(2+)3Fe(3+)] oxidation state for the S = 3/2 state M(N). Among C(4-), N(3-), and O(2-), oxide is found to be the least likely candidate for X. The analysis suggests that X should be present in the cofactor states M(OX) and M(R) as well as in the alternative nitrogenases. The calculations of the electric field gradients (EFGs) indicate that the small values for DeltaE(Q) in M(N) result from an extensive cancellation between valence and ligand contributions. X emerges from the analysis of the hyperfine interactions as an ionically bonded species. Its major effect is on the asymmetry parameters for the EFGs at the six equatorial sites, Fe(Eq). A spin-coupling scheme is proposed for the state [Mo(4+)4Fe(2+)3Fe(3+)] that is consistent with the measured (57)Fe A-tensors and DeltaE(Q) values for M(N) and identifies the unique site exhibiting the small A value with the terminal Fe site, Fe(T). The optimized structure of a cofactor model has been calculated for several oxidation states. The study reveals a contraction in the average Fe-Fe distance upon increasing the number of electrons stored in the cluster, in accord with extended X-ray absorption fine structure studies. The reliability of the adopted methodology for predicting redox-structural correlations is tested for cuboidal [4Fe-4S] clusters. The calculations reveal a systematic increase in the S...S sulfide distances, in quantitative agreement with the available data. These trends are rationalized by a simple electrostatic model.

Calibration↗
PubMed2002

Mössbauer study of reduced rubredoxin as purified and in whole cells. Structural correlation analysis of spin Hamiltonian parameters.

The [Fe(II)(Cys)(4)](2-) site of rubredoxin from Clostridium pasteurianum (Rd(red)) has been studied by Mössbauer spectroscopy in both purified protein and whole cells of Escherichia coli overproducing it. Excellent fits were obtained to an S = 2 spin Hamiltonian for D = 5.7(3) cm(-1), E/D = 0.25(2), delta = 0.70(3) mm/s, DeltaE(Q) = -3.25(2) mm/s, eta = 0.75(5), A(x) = -20.1(7) MHz, A(y) = -11.3(2) MHz, and A(z) = -33.4(14) MHz. These parameters were analyzed with crystal-field theory for the (5)D manifold of iron(II), revealing a d(z(2)) orbital ground state that is admixed by approximately 0.21 d(x(2) - y(2)). The spin-Hamiltonian parameters are consistent within the (5)D theory, apart from the zero-field splitting parameter, D. This problem was solved by extending the crystal-field treatment with spin-orbit coupling to spin-triplet d-d excited states of the iron. Theoretical estimates are given for the spin-triplet (D(T)) and spin-quintet contributions (D(Q)) to D based on excitation energies derived from time-dependent density functional theory, TD-DFT. The computational results were interpreted in terms of crystal-field theory, yielding the Racah parameters B = 682 cm(-1) and C = 2583 cm(-1). The theoretical analysis gives the relative magnitudes D(Q):D(T):D(ss) = 51%: 42%:7% (D(ss) originates from spin-spin interaction). The DFT analysis corroborates the pivotal role of the torsion angles (omega(i)) of the C-S(i) bonds in shaping the electronic structure of the iron(II) site. Rd(red) in overexpressing whole cells accounts for 60% of the Mössbauer absorption. The Rd(red) spectra from whole cells are virtually identical to those of the purified protein. By using the theoretical omega dependence of the spin Hamiltonian parameters, the torsions for Rd(red) in whole cells and purified protein samples are estimated to be the same within 2 degrees. These findings establish Mössbauer spectroscopy as a structural tool for investigating iron sites in whole cells.

Algorithms↗