ENDOR of NO-ligated cytochrome c'

The five-coordinate NO-bound heme in cytochrome c' from an overexpressing variant of denitrifying R. sphaeroides 2.4.3 was investigated by proton, nitrogen, and deuterium Q-band ENDOR (electron nuclear double resonance). ENDOR was a direct probe of the unpaired electron density on the nitrogen of NO and, as measured across the EPR line shape, showed a hyperfine coupling range from 36 to 44 MHz for 14NO and 51 to 63 MHz for 15NO. The smallest NO coupling occurred at an electronic g-tensor axis perpendicular to the FeNO plane, and the largest hyperfine coupling occurred in the FeNO plane where the highest nitrogen valence spin density is located. The isotropic component of the NO hyperfine coupling indicated that the electron spin on the NO is not simply in a pi orbital having only 2p character but is in an orbital having 2s and 2p character in a 1:2 ratio. ENDOR frequencies from heme meso-protons, assigned with reference to porphyrin models, were determined to result from an anisotropic hyperfine tensor. This tensor indicated the orientation of the heme with respect to the FeNO plane and showed that the FeNO plane bisects the heme N-Fe-N 90 degrees angle. ENDOR provided additional structural information through dipolar couplings, as follows: (1) to the nearest proton of the Phe14 ring, approximately 3.1 A away from the heme iron, where Phe14 is positioned to occlude binding of NO as a 6th (distal) ligand; (2) to exchangeable deuterons assigned to Arg127 which may H-bond with the proximal NO ligand.     

Electron spin echo envelope modulation of trapped radicals in disordered systems: nitrogen modulation from isotopically substituted chlorophyll a cations

The electron spin echo envelope modulation of the chlorophyll a radical cation has been examined for radicals containing ¹⁴N and ¹⁵N. The modulation is found to be due primarily to the nitrogen nuclei in the heterocycle and the nuclear quadrupole interaction plays a large part in determining the modulation from ¹⁴N. The modulation from ¹⁵N allows limits to be set on the isotropic and anisotropic hyperfine interactions.     

Interaction of the substrate radical and the 5'-deoxyadenosine-5'-methyl group in vitamin B(12) coenzyme-dependent ethanolamine deaminase

The distance and relative orientation of the C5' methyl group of 5'-deoxyadenosine and the substrate radical in vitamin B(12) coenzyme-dependent ethanolamine deaminase from Salmonella typhimurium have been characterized by using X-band two-pulse electron spin-echo envelope modulation (ESEEM) spectroscopy in the disordered solid state. The (S)-2-aminopropanol-generated substrate radical catalytic intermediate was prepared by cryotrapping steady-state mixtures of enzyme in which catalytically exchangeable hydrogen sites in the active site had been labeled by previous turnover on (2)H(4)-ethanolamine. Simulation of the time- and frequency-domain ESEEM requires two types of coupled (2)H. The strongly coupled (2)H has an effective dipole distance (r(eff)) of 2.2 A, and isotropic coupling constant (A(iso)) of -0.35 MHz. The weakly coupled (2)H has r(eff) = 3.8 A and A(iso) = 0 MHz. The best (2)H ESEEM time- and frequency-domain simulations are achieved with a model in which the hyperfine couplings arise from one strongly coupled hydrogen site and two equivalent weakly coupled hydrogen sites located on the C5' methyl group of 5'-deoxyadenosine. This model indicates that the unpaired electron on C1 of the substrate radical and C5' are separated by 3.2 A and are thus at closest contact. The close proximity of C1 and C5' indicates that C5' of the 5'-deoxyadenosyl moiety directly mediates radical migration between cobalt in cobalamin and the substrate/product site over a distance of 5-7 A in the active site of ethanolamine deaminase.     

Isotropic and anisotropic chlorine hyperfine coupling of dichloro-dicyano benzoquinone anion radical

The ESR spectrum of 2,3-dichloro-5,6-dicyano benzoquinone anion has been recorded in the isotropic and in the nematic phase of liquid crystal solvents. In the isotropic phase it shows splitting only by two ¹⁴N nuclei, while in the nematic phase at high orientation degree, the pattern is that expected for hyperfine coupling with two chlorine nuclei. The orientation of the free radical in the nematic solvent is inferred from the variation of the ¹⁴N splitting.The chlorine anisotropic coupling is used to get the unpaired electron spin density on the chlorine π orbital and the isotropic coupling is discussed in terms of a relationship analogous to that proposed by Karplus and Fraenkel for ¹³C.     

Probing the Electronic Structure of Bacteriochlorophyll Radical Ions—A Theoretical Study of the Effect of Substituents on Hyperfine Parameters

In reaction centers (RCs) of photosynthesis, a light‐induced charge separation takes place creating radical cations and anions of the participating cofactors. In photosynthetic bacteria, different bacteriochlorophylls (BChl) are involved in this process. Information about the electronic structure of the BChl radical cations and anions can be obtained by measuring the electron spin density distribution via the electron–nuclear hyperfine interaction using EPR and ENDOR techniques. In this communication, we report isotropic hyperfine coupling constants (hfcs) of the BChl b and g radical cations and anions, calculated by density functional theory, and compare them with the more common radical ions of BChl a and with available experimental data. The observed differences in the computed hyperfine data are discussed in view of a possible distinction between these species by EPR/ENDOR methods. In addition, ¹⁴N nuclear quadrupole coupling constants (nqcs) computed for BChl a, b, g, and also for Chl a in their charge neutral, radical cation and radical anion states are presented. These nqcs are compared with experimental values obtained by ESEEM spectroscopy on several different radical ions.     

High-field EPR and ESEEM investigation of the nitrogen quadrupole interaction of nitroxide spin labels in disordered solids: toward differentiation between polarity and proticity matrix effects on protein function

The combination of high-field electron paramagnetic resonance (EPR) with site-directed spin labeling (SDSL) techniques employing nitroxide radicals has turned out to be particularly powerful in revealing subtle changes of the polarity and proticity profiles in proteins enbedded in membranes. This information can be obtained by orientation-selective high-field EPR resolving principal components of the nitroxide Zeeman (g) and hyperfine ( A) tensors of the spin labels attached to specific molecular sites. In contrast to the g- and A-tensors, the (14)N ( I = 1) quadrupole interaction tensor of the nitroxide spin label has not been exploited in EPR for probing effects of the microenvironment of functional protein sites. In this work it is shown that the W-band (95 GHz) high-field electron spin echo envelope modulation (ESEEM) method is well suited for determining with high accuracy the (14)N quadrupole tensor principal components of a nitroxide spin label in disordered frozen solution. By W-band ESEEM the quadrupole components of a five-ring pyrroline-type nitroxide radical in glassy ortho-terphenyl and glycerol solutions have been determined. This radical is the headgroup of the MTS spin label widely used in SDSL protein studies. By DFT calulations and W-band ESEEM experiments it is demonstrated that the Q(yy) value is especially sensitive to the proticity and polarity of the nitroxide environment in H-bonding and nonbonding situations. The quadrupole tensor is shown to be rather insensitive to structural variations of the nitroxide label itself. When using Q(yy) as a testing probe of the environment, its ruggedness toward temperature changes represents an important advantage over the g xx and A(zz) parameters which are usually employed for probing matrix effects on the spin labeled molecular site. Thus, beyond measurenments of g xx and A(zz) of spin labeled protein sites in disordered solids, W-band high-field ESEEM studies of (14)N quadrupole interactions open a new avenue to reliably probe subtle environmental effects on the electronic structure. This is a significant step forward on the way to differentiate between effects from matrix polarity and hydrogen-bond formation.     

Active site reactant center geometry in the Co(II)-product radical pair state of coenzyme B12-dependent ethanolamine deaminase determined by using orientation-selection electron spin-echo envelope modulation spectroscopy

The distances and orientations among reactant centers in the active site of coenzyme B12-dependent ethanolamine deaminase from Salmonella typhimurium have been characterized in the Co(II)-product radical pair state by using X-band electron paramagnetic resonance (EPR) and two-pulse electron spin-echo envelope modulation (ESEEM) spectroscopies in the disordered solid state. The unpaired electron spin in the product radical is localized on C2. Our approach is based on the orientation-selection created in the EPR spectrum of the biradical by the axial electron-electron dipolar interaction. Simulation of the EPR line shape yielded a best-fit Co(II)-C2 distance of 9.3 A. ESEEM spectroscopy performed at four magnetic field values addressed the hyperfine coupling of the unpaired electron spin on C2 with 2H in the C5' methyl group of 5'-deoxyadenosine and in the beta-2H position at C1 of the radical. Global ESEEM simulations (over the four magnetic fields) were weighted by the orientation dependence of the EPR line shape. A Nelder-Mead direct search fitting algorithm was used to optimize the simulations. The results lead to a partial model of the active site, in which C5' is located a perpendicular distance of 1.6 A from the Co(II)-C2 axis, at distances of 6.3 and 3.5 A from Co(II) and C2, respectively. The van der Waals contact of the C5'-methyl group and C2 indicates that C5' remains close to the radical species during the rearrangement step. The C2-Hs-C5' angle including the strongly coupled hydrogen, Hs, and the C5'-Hs orientation relative to the C1-C2 axis are consistent with a linear hydrogen atom transfer coordinate and an in-line acceptor p-orbital orientation. The trigonal plane of the C2 atom defines sub-spaces within the active site for C5' radical migration and hydrogen atom transfers (side of the plane facing Co(II)) and amine migration (side of the plane facing away from Co(II)).     

A new mechanism for electron spin echo envelope modulation

Electron spin echo envelope modulation (ESEEM) has been observed for the first time from a coupled heterospin pair of electron and nucleus in liquid solution. Previously, modulation effects in spin-echo experiments have only been described in liquid solutions for a coupled pair of homonuclear spins in nuclear magnetic resonance or a pair of resonant electron spins in electron paramagnetic resonance. We observe low-frequency ESEEM (26 and 52 kHz) due to a new mechanism present for any electron spin with S > 12 that is hyperfine coupled to a nuclear spin. In our case these are electron spin (S = 32) and nuclear spin (I = 1) in the endohedral fullerene N@C(60). The modulation is shown to arise from second-order effects in the isotropic hyperfine coupling of an electron and (14)N nucleus.     

Hydrogen bonding affects the [NiFe] active site of Desulfovibrio vulgaris Miyazaki F hydrogenase: a hyperfine sublevel correlation spectroscopy and density functional theory study

Pulse electron paramagnetic resonance and hyperfine sublevel correlation spectroscopy have been used to investigate nitrogen coordination of the active site of [NiFe] hydrogenase of Desulfovibrio vulgaris Miyazaki F in its oxidized "ready" state. The obtained (14)N hyperfine (A = [+1.32, +1.32, +2.07] MHz) and nuclear quadrupole (e(2)qQ/h = -1.9 MHz, eta = 0.37) coupling constants were assigned to the N(epsilon) of a highly conserved histidine (His88) by studying a hydrogenase preparation in which the histidines were (15)N labeled. The histidine is hydrogen-bonded via its N(epsilon)-H to the nickel-coordinating sulfur of a cysteine (Cys549) that carries an appreciable amount of spin density. Through the hydrogen bond a small fraction of the spin density ( approximately 1%) is delocalized onto the histidine ring giving rise to an isotropic (14)N hyperfine coupling constant of about 1.6 MHz. These conclusions are supported by density functional calculations. The measured (14)N quadrupole coupling constants are related to the polarization of the N(epsilon)-H bond, and the respective hydrogen bond can be classified as being weak.     

Density functional theory study of the beta-carotene radical cation and deprotonated radicals

The beta-carotene radical cation and deprotonated neutral radicals were studied at the density functional theory (DFT) level using different density functionals and basis sets: B3LYP/3-21G, SVWN5/6-31G*, BPW91/DGDZVP2, and B3LYP/6-31G**. The geometries, total energies, spin distributions, and isotropic and anisotropic hyperfine coupling constants of these species were calculated. Deprotonation of the methyl group at the double bond of the cyclohexene ring of the carotenoid radical cation at 5 or 5' produces the most stable neutral radical because of retention of the pi-conjugated system while less stable deprotonation at 9 or 9' and 13 or 13' of the chain methyl groups causes significant distortion of the conjugation. The predicted methyl hyperfine coupling constants of 13-16 MHz of the neutral radicals are in good agreement with the previous electron nuclear double resonance (ENDOR) spectrum of photolyzed beta-carotene on a solid support. DFT calculations on the beta-carotene radical cation in a polar water environment showed that the polar environment does not cause significant changes in the proton hyperfine constants from those in the isolated gas-phase molecule. DFT calculated methyl proton hyperfine coupling constants of less than 7.2 MHz are in agreement with those reported for the radical cation in photosystem II (PS II) and those found in the absence of UV light for the radical cation on a silica alumina matrix.     

Density Functional Theory calculations on the magnetic properties of the model tyrosine radical-histidine complex mimicking tyrosyl radical Y<Subscript>D</Subscript><Superscript>·</Superscript> in photosystem II

Results of Density Functional Theory (DFT) theoretical investigations, which use a model tyrosyl (Tyr) radical and tyrosyl-histidine (Tyr-His) complex to mimick the Y _D ^· radical in Photosystem II (PSII) are presented and compared to experimental results from ¹⁵N Electron-Nuclear Double Resonance spectroscopy (ENDOR) studies of the τ nitrogen coupling from His-189 in the PSII Tyr-His complex. The DFT calculations are performed using an optimized geometry of the tyrosine radical and Tyr-His complex. The conformational space of the Tyr-His tandem is explored by varying the relative geometry of the two components; relevant parameters, such as the spin distribution on the phenoxy-ring carbons of the Tyr radical and the EPR hyperfine tensors, are calculated at each geometry and compared with the available experimental data. The isotropic ¹⁵N-ENDOR signal arising from spin delocalization on the His hydrogen-bonded to the PSII tyrosine radical is analyzed in terms of the DFT obtained parameters. The calculations of the g tensor using the Gauge Independent Atomic Orbital (GIAO) approach are presented and the influence of the geometry of the Tyr-His complex on the deviation of the g-tensor elements from the free electron values is discussed.     

The structure of the hydrated electron. Part 1. Magnetic resonance of internally trapping water anions: a density functional theory study

Density functional theory is used to rationalize magnetic parameters of hydrated electron trapped in alkaline glasses as observed using electron paramagnetic resonance (EPR) and electron spin echo envelope modulation (ESEEM) spectroscopies. To this end, model water cluster anions (n=4-8 and n=20, 24) that localize the electron internally are examined. It is shown that hyperfine coupling tensors of H/D nuclei in the water molecules are defined mainly by the cavity size and the coordination number of the electron; the water molecules in the second solvation shell play a relatively minor role. An idealized model of the hydrated electron (that is usually attributed to L. Kevan) in which six hydroxyl groups arranged in an octahedral pattern point toward the common center is shown to provide the closest match to the experimental parameters, such as isotropic and anisotropic hyperfine coupling constants for the protons (estimated from ESEEM), the second moment of the EPR spectra, and the radius of gyration. The salient feature is the significant transfer (10-20%) of spin density into the frontal O 2p orbitals of water molecules. Spin bond polarization involving these oxygen orbitals accounts for small, negative hyperfine coupling constants for protons in hydroxyl groups that form the electron-trapping cavity. In Part 2, these results are generalized for more realistic geometries of core anions obtained using a dynamic one-electron mixed quantum/classical molecular dynamics model.     

The role of the Mg2+ cation in ATPsynthase studied by electron paramagnetic resonance using VO2+ and Mn2+ paramagnetic probes

The electron paramagnetic resonance (EPR), electron spin echo envelope modulation (ESEEM) and hyperfine sublevel correlation (HYSCORE) spectra of Mg2+-depleted chloroplast F1-ATPase substituted with stoichiometric VO2+ are reported. The ESEEM and HYSCORE spectra of the complex are dominated by the hyperfine and quadrupole interactions between the VO2+ paramagnet and two different nitrogen ligands with isotropic hyperfine couplings /A1/ = 4.11 MHz and /A2/ = 6.46 MHz and nuclear quadrupole couplings e2qQ1 approximately 3.89-4.49 MHz and e2qQ2 approximately 1.91-2.20 MHz, respectively. Aminoacid functional groups compatible with these magnetic couplings include a histidine imidazole, the epsilon-NH2 of a lysine residue, and the guanidinium group of an arginine. Consistent with this interpretation, very characteristic correlations are detected in the HYSCORE spectra between the 14N deltaM1 = 2 transitions in the negative quadrant, and also between some of the deltaM1 = 1 transitions in the positive quadrant. The interaction of the substrate and product ADP and ATP nucleotides with the enzyme has been studied in protein complexes where Mg2+ is substituted for Mn2+. Stoichiometric complexes of Mn x ADP and Mn x ATP with the whole enzyme show distinct and specific hyperfine couplings with the 31P atoms of the bonding phosphates in the HYSCORE (ADP, A(31Pbeta) = 5.20 MHz: ATP, A(31Pbeta) = 4.60 MHz and A(31Pgamma) = 5.90 MHz) demonstrating the role of the enzyme active site in positioning the di- or triphosphate chain of the nucleotide for efficient catalysis. When the complexes are formed with the isolated alpha or beta subunits of the enzyme, the HYSCORE spectra are substantially modified, suggesting that in these cases the nucleotide binding site is only partially structured.     

1H and 13C hyperfine coupling constants of the tryptophanyl cation radical in aqueous solution from microsecond time-resolved CIDNP

Relative values of the 1H and 13C isotropic hyperfine couplings in the cationic oxidized tryptophan radical TrpH*+ in aqueous solution are determined. The data are obtained from the photo-CIDNP (chemically induced dynamic nuclear polarization) enhancements observed in the microsecond time-resolved NMR spectra of the diamagnetic products of photochemical reactions in which TrpH*+ is a transient intermediate. The method is validated using the tyrosyl neutral radical Tyr*, whose 1H and 13C hyperfine couplings have previously been determined by electron paramagnetic resonance spectroscopy. Good agreement is found with hyperfine coupling constants for TrpH*+ calculated using density functional theory methods but only if water molecules are explicitly included in the calculation.     

EPR and ESEEM study of the plastoquinone anion radical QA in photosystem II treated at high pH

The effect of treatment at pH = 11 on the photosystem II was studied by EPR and electron spin echo envelope modulation (ESEEM). The magnetic interaction between the semiquinone Q_A^−. and the non-heme Fe²⁺ (S = 2) was absent. ESEEM showed that the Q_A^−. interacts magnetically with two ¹⁴N nuclei. The first interaction has a hyperfine coupling tensor (A_XX, A_YY, A_ZZ)=(2.0, 1.7, 2.3 MHz) and nuclear quadrupole interaction parameters e²qQ/h=3.24 MHz and η = 0.45 while those of the second are (A_XX, A_YY, A_ZZ)=(1.2, 1.5, 2.3 MHz), e²qQ/h = 1.56 MHz and η = 0.71. These are assigned to an amide nitrogen of the peptide backbone and the amino nitrogen of an imidazole respectively. By analogy to the bacterial reaction centre, these nitrogens are attributed to the Ala 261 and His 215 of the D2 protein. It was shown earlier that the imidazole coupling is absent in cyanide-treated PSII, its presence here is attributed to a difference in the position of the imidazole group itself.     

Direct demonstration of the presence of coordinated sulfate in the reaction pathway of Arabidopsis thaliana sulfite oxidase using 33S labeling and ESEEM spectroscopy

Sulfite oxidase from Arabidopsis thaliana has been reduced at pH = 6 with sulfite labeled with 33S (nuclear spin I = 3/2), followed by reoxidation by ferricyanide to generate the Mo(V) state of the active center. To obtain information about the hyperfine interaction (hfi) of 33S with Mo(V), continuous-wave electron paramagnetic resonance (EPR) and electron spin echo envelope modulation (ESEEM) experiments have been performed. The interpretation of the EPR and ESEEM spectra was facilitated by a theoretical analysis of the nuclear transition frequencies expected for the situation of the nuclear quadrupole interaction being much stronger than the Zeeman and hyperfine interactions. The isotropic hfi constant of 33S determined in these experiments was about 3 MHz, which demonstrates the presence of coordinated sulfate in the sulfite-reduced low-pH form of the plant enzyme.     

The impact of excitation frequency on the nuclear modulation of electron spin echoes: 14N hyperfine and quadrupole interactions of DPPH in disordered solids

Electron spin-echo envelope modulations of DPPH in glassy and polycrystalline solids at 100 K have been measured at 4.6 and 9.1 GHz electron spin excitation frequencies. ¹⁴N hyperfine and quadrupole coupling parameters have been evaluated through comparison of the experimental data waveforms and the corresponding spectra with simulated modulation patterns and associated frequency histograms. Because of the strong excitation frequency dependence of ESEEM, agreement between the observed and the simulated results at octave-separated excitation frequencies leads to a significant improvement in the accuracy of the derived couplings.     

DFT‐EPR study of radiation‐induced radicals in α‐D‐glucose

The structures of two radiation‐induced radicals in solid‐state α‐D ‐glucose have been identified by means of single‐molecule density function theory (DFT) calculations. Using the original crystalline structure as input, several radical models were created and their geometries optimized. Subsequently, electron paramagnetic resonance (EPR) parameters were calculated. During these calculations, the global orientation of the radical structure was kept fixed with respect to the crystal axes reference frame. This was essential to allow for an easy analysis of the hyperfine tensor principal directions, besides the isotropic and anisotropic coupling constants. By comparing these calculated EPR parameters with their experimentally determined counterparts, a plausible identification of two carbon‐centered glucose radicals was possible. © 2004 Wiley Periodicals, Inc. Int J Quantum Chem, 2004     

1H-,2H-,13C- and 14N-endor studies of coppinger's radicals in liquid solutions and in liquid crystals

Proton and non-proton ENDOR studies are reported on isotopically labelled Coppinger's radical (galvinoxyl) and on N-Coppinger's radical in isotropic solutions and in liquid-crystalline mesophases. The hyperfine coupling constant shifts have been measured over the temperature range of the nematic mesophase and an analysis of the shifts in terms of anisotropic hyperfine tensors and ordering parameters is given. A short phenomenological discussion of the ¹³C and¹⁴N ENDOR response is presented. Several methods for the sign determination of hyperfine coupling constants are discussed. Finally, a survey of the ENDOR spectroscopy on galvinoxyl type biradicals is given.     

Normal modes of redox-active tyrosine: conformation dependence and comparison to experiment

Redox-active tyrosine residues play important roles in long-distance electron reactions in enzymes such as prostaglandin H synthase, ribonucleotide reductase, and photosystem II (PSII). Spectroscopic characterization of tyrosyl radicals in these systems provides a powerful experimental probe into the role of the enzyme in mediation of long-range electron transfer processes. Interpretation of such data, however, relies critically on first establishing a spectroscopic fingerprint of isotopically labeled tyrosinate and tyrosyl radicals in nonenzymatic environments. In this report, FT-IR results obtained from tyrosinate, tyrosyl radical (produced by ultraviolet photolysis of polycrystalline tyrosinate), and their isotopologues at 77 K are presented. Assignment of peaks and isotope shifts is aided by density-functional B3LYP/6-311++G(3df,2p)//B3LYP/6-31++G(d,p) calculations of tyrosine and tyrosyl radical in several different charge and protonation states. In addition, characterization of the potential energy surfaces of tyrosinate and tyrosyl radical as a function of the backbone and ring torsion angles provides detailed insight into the sensitivity of the vibrational frequencies to conformational changes. These results provide a detailed spectroscopic interpretation, which will elucidate the structures of redox-active tyrosine residues in complex protein environments. Specific application of these data is made to enzymatic systems.