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PubMed1991

Compound I radical in site-directed mutants of cytochrome c peroxidase as probed by electron paramagnetic resonance and electron-nuclear double resonance.

The reaction of ferric cytochrome c peroxidase (CcP) from Saccharomyces cerevisiae with peroxide produces compound I, characterized by both an oxyferryl iron center and a protein-based free radical. The electron paramagnetic resonance (EPR) signal of the CcP compound I radical can be resolved into a broad majority component which accounts for approximately 90% of the spin intensity and a narrow minority component which accounts for approximately 10% of the integrated spin intensity [Hori, H., & Yonetani, T. (1985) J. Biol. Chem. 260, 3549-3555]. It was shown previously that the broad component of the compound I radical signal is eliminated by mutation of Trp-191 to Phe [Scholes, C. P., Liu, Y., Fishel, L. F., Farnum, M. F., Mauro, J. M., & Kraut, J. (1989) Isr. J. Chem. 29, 85-92]. The present work probed the effect of mutations in the vicinity of this residue by EPR and electron-nuclear double resonance (ENDOR). These mutations were obtained from a plasmid-encoded form of S. cerevisiae expressed in Escherichia coli [Fishel, L. A., Villafranca, J. E., Mauro, J. M., & Kraut, J. (1987) Biochemistry 26, 351-360]. The EPR line shape and ENDOR signals of the compound I radical were perturbed only by mutations that alter Trp-191 or residues in its immediate vicinity: namely, Met-230 and Met-231, which have sulfur atoms within 4 A of the indole ring, and Asp-235, which forms a hydrogen bond with the indole nitrogen of Trp-191. Mutations of other potential oxidizable sites (tryptophan, tyrosine, methionine, and cysteine) did not alter the EPR line shapes of the compound I radical, although the integrated spin intensities were weaker in some of these mutants. Mutations at Met-230 and/or -231 perturbed the EPR line shapes of the compound I radical signal but did not eliminate it. ENDOR of these two methionine mutants showed alteration to the hyperfine couplings of several strongly coupled protons, which are characteristic of the majority compound I radical electronic structure, and a change in weaker hyperfine couplings, which suggests a different orientation of the radical with respect to its surroundings in the presence of these methionine mutations. Besides the Trp-191----Phe mutation, only the Asp-235----Asn mutation eliminated the broad component of the compound I signal. Loss of the broad compound I EPR signal coincides with both the loss of the Asp----Trp-191 hydrogen-bonding interaction and alteration of the position of the indole ring of Trp-191.(ABSTRACT TRUNCATED AT 400 WORDS)

Amino Acid Sequence↗

PubMed2001

Thermodynamics of electron transfer in oxygenic photosynthetic reaction centers: volume change, enthalpy, and entropy of electron-transfer reactions in manganese-depleted photosystem II core complexes.

We have previously reported the thermodynamic data of electron transfer in photosystem I using pulsed time-resolved photoacoustics [Hou et al. (2001) Biochemistry 40, 7109-7116]. In the present work, using preparations of purified manganese-depleted photosystem II (PS II) core complexes from Synechocystis sp. PCC 6803, we have measured the DeltaV, DeltaH, and estimated TDeltaS of electron transfer on the time scale of 1 micros. At pH 6.0, the volume contraction of PS II was determined to be -9 +/- 1 A3. The thermal efficiency was found to be 52 +/- 5%, which corresponds to an enthalpy change of -0.9 +/- 0.1 eV for the formation of the state P680+Q(A-) from P680*. An unexpected volume expansion on pulse saturation of PS II was observed, which is reversible in the dark. At pH 9.0, the volume contraction, the thermal efficiency, and the enthalpy change were -3.4 +/- 0.5 A3, 37 +/- 7%, and -1.15 +/- 0.13 eV, respectively. The DeltaV of PS II, smaller than that of PS I and bacterial centers, is assigned to electrostriction and analyzed using the Drude-Nernst equation. To explain the small DeltaV for the formation of P680+Q(A-) or Y(Z*)Q(A-), we propose that fast proton transfer into a polar region is involved in this reaction. Taking the free energy of charge separation of PS II as the difference between the energy of the excited-state P680* and the difference in the redox potentials of the donor and acceptor, the apparent entropy change (TDeltaS) for charge separation of PS II is calculated to be negative, -0.1 +/- 0.1 eV at pH 6.0 (P680+Q(A-)) and -0.2 +/- 0.15 eV at pH 9.0 (Y(Z*)Q(A-)). The thermodynamic properties of electron transfer in PS II core reaction centers thus differ considerably from those of bacterial and PS I reaction centers, which have DeltaV of approximately -27 A3, DeltaH of approximately -0.4 eV, and TDeltaS of approximately +0.4 eV.

Cyanobacteria↗

PubMed2002

Mutation of alphaPhe55 of methylamine dehydrogenase alters the reorganization energy and electronic coupling for its electron transfer reaction with amicyanin.

Methylamine dehydrogenase (MADH) possesses an alpha(2)beta(2) structure with each smaller beta subunit possessing a tryptophan tryptophylquinone (TTQ) prosthetic group. Phe55 of the alpha subunit is located where the substrate channel from the enzyme surface opens into the active site. Site-directed mutagenesis of alphaPhe55 has revealed roles for this residue in determining substrate specificity and binding monovalent cations at the active site. It is now shown that the alphaF55A mutation also increases the rate of the true electron transfer (ET) reaction from O-quinol MADH to amicyanin. The reorganization energy associated with the ET reaction is decreased from 2.3 to 1.8 eV. The electronic coupling associated with the ET reaction is decreased from 12 to 3 cm(-1). The crystal structure of alphaF55A MADH in complex with its electron acceptors, amicyanin and cytochrome c-551i, has been determined. Little difference in the overall structure is seen, relative to the native complex; however, there are significant changes in the solvent content of the active site and substrate channel. The crystal structure of alphaF55A MADH has also been determined with phenylhydrazine covalently bound to TTQ in the active site. Phenylhydrazine binding significantly perturbs the orientation of the TTQ rings relative to each other. The ET results are discussed in the context of the new and old crystal structures of the native and mutant enzymes.

Amino Acid Sequence↗

PubMed2006

Substrate-dependent unfolding of the energy coupling motif of a membrane transport protein determined by double electron-electron resonance.

BtuB is a TonB-dependent transport protein that binds and carries vitamin B(12) across the outer membrane of Gram negative bacteria such as Escherichia coli. Previous work has demonstrated that the Ton box, a highly conserved segment near the N-terminus of the protein, undergoes an order-to-disorder transition upon the binding of substrate. Here, we incorporate pairs of nitroxide spin labels into membrane reconstituted BtuB and utilize a four-pulse double electron-electron resonance (DEER) experiment to measure distances between the Ton box and the periplasmic surface of the transporter with and without substrate. During reconstitution, the labeled membrane protein was diluted with wild-type protein, which significantly reduced the intermolecular electron spin-spin relaxation rate and increased the DEER signal-to-noise ratio. In the absence of substrate, each spin pair gives rise to a single distribution of distances that is consistent with the crystal structure obtained for BtuB; however, distances that are much longer are found in the presence of substrate, and the data are consistent with the existence of an equilibrium between folded and unfolded states of the Ton box. From these distances, a model for the position of the Ton box was constructed, and it indicates that the N-terminal end of the Ton box extends approximately 20 to 30 A into the periplasm upon the addition of substrate. We propose that this substrate-induced extension provides the signal that initiates interactions between BtuB and the inner membrane protein TonB.

Amino Acid Motifs↗

PubMed1996

Binding of the oxidized, reduced, and radical flavin species to chorismate synthase. An investigation by spectrophotometry, fluorimetry, and electron paramagnetic resonance and electron nuclear double resonance spectroscopy.

Chorismate synthase (EC 4.6.1.4) binds oxidized riboflavin-5'-phosphate mononucleotide (FMN) with a KD of 30 microM at 25 degrees C, but in the presence of 5-enolpyruvylshikimate-3-phosphate (EPSP), the KD decreases to ca. 20 nM. Similar effects occur with the substrate analogue (6R)-6-fluoro-EPSP (KD = 36 nM) and chorismate (KD = 540 nM). Fluorescence of oxidized FMN is slightly quenched in the presence of chorismate synthase. Addition of EPSP or the (6R)-6-fluoro analogue causes a shift of the fluorescence from 520 to 495 nm. Chorismate causes no shift in, but a quenching of, the fluorescence emission maximum. In the presence of EPSP, (6R)-6-fluoro-EPSP, or chorismate, the neutral flavinsemiquinone is generated. The electron paramagnetic resonance (EPR) line width of the flavin radical is indicative of a neutral flavinsemiquinone. Frozen solution electron nuclear double resonance (ENDOR) of the radical with (6R)-6-fluoro-EPSP shows a number of proton ENDOR line pairs. The largest splitting is assigned to a hyperfine coupling to the methyl group beta-protons at position 8 of the isoalloxazine ring. The hyperfine-coupling (hfc) components have values of A perpendicular = 8.07 MHz and A parallel = 9.60 MHz, giving Aiso of 8.58 MHz, consistent with a neutral semiquinone form. The isotropic hfc coupling of the 8-methyl protons with (6R)-6-fluoro-EPSP decreases by about 0.5 MHz when chorismate is bound, indicating that the spin density distribution within the isoalloxazine ring system depends critically on the nature of the ligand. The redox potential of FMN in the presence of chorismate synthase was 95 mV more positive than that of free FMN (at pH 7.0), equivalent to a 1660-fold tighter binding of reduced FMN. The pH dependence of the redox potential of chorismate synthase-bound FMN exhibits a slope of -30 mV per pH unit between pH 6 and 9, indicating that the two-electron reduction of the flavin is associated with the uptake of one proton; this, and the UV-visible spectrum, is consistent with the reduced flavin being bound to chorismate synthase in its monoanionic form.

Electron Spin Resonance Spectroscopy↗

PubMed2001

Nickel dithiolenes revisited: structures and electron distribution from density functional theory for the three-member electron-transfer series [Ni(S2C2Me2)2]0,1-,2-.

The complexes [Ni(S2C2Me2)2](z) (z = 0, 1-, 2-) have been isolated for the purpose of investigating their electronic structures in a reversible three-member electron-transfer series. Members are interrelated by reversible redox reactions with E(1/2)(0/1-) = -0.15 V and E(1/2)(1-/2-) = -1.05 V versus SCE in acetonitrile. The three complexes have nearly planar structures of idealized D(2)(h) symmetry. As the series is traversed in the reducing direction, Ni-S and C-S bond lengths increase; the chelate ring C-C bond length decreases from the neutral complex to the monoanion and does not change significantly in the dianion. Structural trends are compared with previous results for [Ni(S2C2R2)2)](1-,2-). Following the geometrical changes, values of nu(Ni)(-)(S) and nu(C)(-)(S) decrease, while the value of nu(C)(-)(C) increases with increased reduction. Geometry optimizations at the density functional theory (DFT) level were performed for all members of the series. Geometrical parameters obtained from the calculations are in good agreement with the experimental findings. The 5b(2g) orbital was identified as the LUMO in [Ni(S2C2Me2)2], the SOMO in [Ni(S2C2Me2)2](1-), and the HOMO in [Ni(S2C2Me2)2]2-. Unlike in the situation in the [M(CO)2-(S2C2Me2)2]z series (M = Mo, W; z = 0, 1-, 2-), the apparent contribution from the metal d orbital in the electroactive orbital is not constant. In the present series, the d(xz) contribution increases from 13 to 20 to 39% upon passing from the neutral to the monoanionic to the dianionic complex. Accurate calculation of EPR g-values of [Ni(S2C2Me2)2]1- by DFT serves as a test for the reliability of the electronic structure calculations.

Crystallography, X-Ray↗

PubMed2002

1,2-dithiin annelated with bicyclo[2.2.2]octene frameworks. One-electron and two-electron oxidations and formation of a novel 2,3,5,6-tetrathiabicyclo[2.2.2]oct-7-ene radical cation with remarkable stability owing to a strong transannular interaction.

A stable derivative of 1,2-dithiin annelated with bicyclo[2.2.2]octene frameworks 4 was synthesized as red crystals by the reaction of a dilithiated dimer of bicyclo[2.2.2]octene with elemental sulfur in 59% yield. The cyclic voltammetry of 4 in CH(2)Cl(2) at -78 degrees C showed two reversible oxidation waves at E(1/2) +0.18 V and +0.72 V versus Fc/Fc(+), indicating that the radical cation and dication of 4 are stable under these conditions. Upon chemical one-electron oxidation of 4 in a rather low concentration (4.0 x 10(-4) M) with a 1.5 equiv of SbCl(5) in CH(2)Cl(2), a radical cation 4.+ was formed, whose spin distribution was determined by ESR spectroscopy and by the results of theoretical calculations (UB3LYP/6-31G). The electronic absorption spectrum of 4.+ in CH(2)Cl(2) exhibited a maximum absorption at 428 nm (epsilon = 2.3 x 10(3)), which was hypsochromically shifted from that of neutral 4 (469 nm). When the radical cation 4.+ was produced in higher concentration (0.06 M) in CH(2)Cl(2), a disproportionation was found to take place to give a SbCl(6)(-) salt of remarkably stable radical cation 5.+ having a novel 2,3,5,6-tetrathiabicyclo[2.2.2]oct-7-ene structure. In the X-ray structure of 5.+SbCl(6)(-), the transannular distance (2.794(3) A) between the sulfur atoms was found to be less than the sum of the van der Waals radii of a sulfur atom (3.70 A), suggesting the existence of a bonding interaction between the two disulfide linkages. The theoretical calculations (UB3LYP/6-31G) suggested that this transannular interaction could be described as the resonance between the limiting structures, each of them having a two-center three-electron bond between two sulfur atoms belonging to two different disulfide linkages: thus, both the spin and positive charge are equally delocalized to the four sulfur atoms, causing a great stabilization of 5.+. On the other hand, the 1,2-dithiin radical cation 4.+ was found to readily react with triplet oxygen with subsequent rearrangement to give the 1,2-dithiolium derivative 6+ having a carboxyl group. Finally, the reaction of 4 with an excess amount of SbF(5) gave the corresponding dication 4(2+), which was found to be a 6pi aromatic system on the basis of the results of NMR measurement and theoretical calculations.

Bridged Bicyclo Compounds↗

PubMed2003

Direct determination of the number of electrons needed to reduce coenzyme F430 pentamethyl ester to the Ni(I) species exhibiting the electron paramagnetic resonance and ultraviolet-visible spectra characteristic for the MCR(red1) state of methyl-coenzyme M reductase.

The UV-visible and electron paramagnetic resonance (EPR) spectra of MCR(red1), the catalytically active state of methyl-coenzyme M reductase, are almost identical to those observed when free coenzyme F430 or its pentamethyl ester (F430M) are reduced to the Ni(I) valence state. Investigations and proposals concerning the catalytic mechanism of MCR were therefore based on MCR(red1) containing Ni(I)F430 until, in a recent report, Tang et al. (J. Am. Chem. Soc. 2002, 124, 13242) interpreted their resonance Raman data and titration experiments as indicating that, in MCR(red1), coenzyme F430 is not only reduced at the nickel center but at one of the C=N double bonds of the hydrocorphinoid macrocycle as well. To resolve this contradiction, we have investigated the stoichiometry of the reduction of coenzyme F430 pentamethyl ester (F430M) by three independent methods. Spectroelectrochemistry showed clean reduction to a single product that exhibits the UV-vis spectrum typical for MCR(red1). In three bulk electrolysis experiments, 0.96 +/- 0.1 F/mol was required to generate the reduced species. Reduction with decamethylcobaltocene in tetrahydrofuran (THF) consumed 1 mol of (Cp)(2)Co/mol of F430M, and the stoichiometry of the reoxidation of the reduced form with the two-electron oxidant methylene blue was 0.46 +/- 0.05 mol of methylene blue/mol of reduced F430M. These experiments demonstrate that the reduction of coenzyme F430M to the species having almost identical UV-vis and EPR spectra as MCR(red1) is a one-electron process and therefore inconsistent with a reduction of the macrocycle chromophore.

Electrochemistry↗

PubMed2005

Ultrafast intermolecular electron transfer dynamics: Perylene in electron-accepting micellar medium.

The dynamics of ultrafast photoinduced intermolecular electron transfer (ET) from the excited singlet (S1) state of perylene (Pe) to an electron-accepting cationic surfactant molecule, N-cetylpyridinium chloride (CPC), in aqueous micellar solutions has been investigated using the femtosecond transient absorption spectroscopic technique with temporal resolution of 120 fs. The Pe molecule is localized at or near the micellar surface, where it coexists with the pyridinium moieties (headgroups of the micelle) of the surfactant molecule. Following photoexcitation of Pe, an electron is transferred to the neat and geometrically restricted headgroup of the micelle. Dynamics of the forward ET process as well as the geminate recombination or back ET (BET) process have been followed by monitoring the temporal evolution of the S1 state of Pe and the cation radical of Pe (Pe*+), respectively. The multiexponential forward ET process indicates that the ET dynamics is highly correlated with the spatial distributions of the micellar headgroups around a donor Pe molecule and thus dependent on the donor-acceptor distance. The distance-dependent ET and BET rates have been calculated following the method of Weidemaier and Fayer (J. Chem. Phys. 1995, 102, 3820) to get the best fit parameters for the multiexponetial temporal profiles for the S1 state of Pe as well as Pe*+. Because the acceptor is a constituent of the neat micellar medium, their confinement on the surface of the microheterogeneous medium provides a very large concentration such that, even though the forward transfer rate is 0.06 ps(-1) at the distance of closest approach, the ET process is complete within a 200-ps time domain. If the concepts of distribution of ET distances are utilized, the possible role of material diffusion on the kinetics of forward ET is ruled out. This is an experimental study to show, for the first time, the ultrafast distance-dependent light-induced ET dynamics following both the excited state of the donor and the cation radical formed in an ET process using the transient absorption spectroscopic technique in a self-reactive restrictive environment.

Electrons↗

PubMed2006

Excitation spectra of dibenzoborole containing pi-electron systems: controlling the electronic spectra by changing the p(pi)-pi* conjugation.

We report time-dependent density functional theory calculations of the vertical excitation energies for the singlet states of three-coordinate 5H-dibenzoborole (DBB) derivatives and four-coordinate 5-fluoro-5H-dibenzoborole ion (FDBB) derivatives. These molecules show remarkable hypsochromic (blue) shifts in their fluorescence spectra and bathochromic (red) shifts in their absorption spectra when the bridging boron atoms change their coordination number from three to four. We constructed a series of derivatives of DBB and FDBB and studied how the energies of the electronic excitations change. The states with prominent oscillator strength in all of the DBB and FDBB derivatives show similar shifts of their excitation energies upon coordination. The three-coordinate DBB derivative 5-(2,4,6-triisopropylphenyl)-2,8-dimethoxy-3,7-bis[p-(N,N-diphenylamino)phenyl]-5H-dibenzo[d,b]borole has an intense absorption at 3.25 eV, which shifts in the four-coordinate FDBB derivative 5-fluro-5-(2,4,6-triisopropylphenyl)-2,8-dimethoxy-3,7-bis[p-(N,N-dip henylamino)phenyl]-5H-dibenzo[d,b]borole ion to 3.17 eV. The experimental absorption peaks are 3.43 and 3.31 eV, respectively. In addition, we investigated and analyzed the nature of these electronic excitations using attachment/detachment density plots, with which we characterized the changes in electron density that arose from the excitations.

Algorithms↗

PubMed2006

Electronic coupling between heme electron-transfer centers and its decay with distance depends strongly on relative orientation.

A method for calculating the electron-transfer matrix element V(RP) using density functional theory Kohn-Sham orbitals is presented and applied to heme dimers of varying relative orientation. The electronic coupling decays with increased iron separation according to V(RP) = V(0)(RP)exp(-beta r/2) with a distance dependence parameter beta approximately 2 A(-1) for hemes with parallel porphyrins and either 1.1 or 4.0 A(-1) when the porphyrin planes are perpendicular, depending on the alignment of the iron d(pi) orbital. These findings are used to interpret the observed orientation of the hemes in tetraheme redox proteins such as Flavocytochrome c(3) fumarate reductase (Ifc(3), PDB code 1QJD) of Shewanella frigidimarina, another flavocytochrome from the same bacterium (Fcc(3), 1E39) and a small tetraheme cytochrome of Shewanella oneidensis strain MR1 (1M1P). Our results show that shifting and rotating the hemes controls the adiabaticity of the three electron hopping steps.

Computer Simulation↗

PubMed2006

Direct electron transfer--a favorite electron route for cellobiose dehydrogenase (CDH) from Trametes villosa. Comparison with CDH from Phanerochaete chrysosporium.

This paper presents some functional differences as well as similarities observed when comparing the newly discovered cellobiose dehydrogenase (CDH) from Trametes villosa (T.v.) with the well-characterized one from Phanerochaete chrysosporium (P.c.). The enzymes were physically adsorbed on spectrographic graphite electrodes placed in an amperometric flow through cell connected to a flow system. In the case of T.v.-CDH-modified graphite electrodes, a high direct electron transfer (DET) current was registered at the polarized electrode in the presence of the enzyme substrate reflecting a very efficient internal electron transfer (IET) process between the reduced FAD-cofactor and the oxidized heme-cofactor. In the case of P.c.-CDH-modified graphite electrodes, the DET process is not as efficient, and the current will greatly increase in the presence of a mediator (mediated electron transfer, MET). As a consequence, when comparing the two types of enzyme-modified electrodes an inverted DET/MET ratio for T.v.-CDH is shown, in comparison with P.c.-CDH. The rates of the catalytic reaction were estimated to be comparable for both enzymes, by measuring the combined DET + MET currents. The inverted DET/MET ratio for T.v.-CDH-modified electrodes might suggest that probably there is a better docking between the two domains of this enzyme and that the linker region of P.c.-CDH might have an active role in modulating the rate of the IET (by changing the interdomain distance), with respect to pH. Based on the new properties of T.v.-CDH emphasized in the present study, an analytical application of a third-generation biosensor for lactose was recently published.

Adsorption↗

PubMed1987

Cytochrome b2, an electron carrier between flavocytochrome b2 and cytochrome c. Rapid kinetic characterization of the electron-transfer parameters with ionic-strength-dependence.

The oxidation-reduction properties of free cytochrome b2 isolated by controlled proteolysis from flavocytochrome b2, i.e. the flavodehydrogenase-bound cytochrome b2, were investigated by using stopped-flow spectrophotometry. The rapid kinetics of the reduction of cytochrome b2 by flavocytochrome b2 in the presence of L-lactate are reported. The self-exchange rate constant between reduced cytochrome b2 bound to the flavodehydrogenase and free cytochrome b2 was determined to be 10(5) M-1 X S-1 at 5 degrees C, I 0.2 and pH 7.0. The specific electron-transfer reaction between reduced cytochrome b2 and cytochrome c was also studied, giving an apparent second-order rate constant of 10(7) M-1 X S-1 at 5 degrees C, I 0.2 and pH 7.0. This electron-exchange rate is slightly modulated by ionic strength, following the Debye-Hückel relationship with a charge factor Z1Z2 = -1.9. Comparison of these data with those for the reduction of cytochrome c by flavodehydrogenase-bound cytochrome b2 [Capeillère-Blandin (1982) Eur. J. Biochem. 128, 533-542] leads to the conclusion that the intramolecular electron exchange between haem b2 and haem c within the reaction complex occurs at a rate very similar to that determined experimentally in presence of the flavodehydrogenase domain. The low reaction rate observed with free cytochrome b2 is ascribed to the low stability of the reaction complex formed between free cytochrome b2 and cytochrome c.

Cytochrome c Group↗

PubMed2000

Theory of malignant cell transformation by superoxide fate coupled with cytoskeletal electron-transport and electron-transfer.

Signaling and tumor promoting functions have been experimentally assigned to the cytoskeleton, many of them linked to oxygen free radicals like superoxide. Superoxide and other reactive oxygen species (ROS) have been associated for many years with oncogenesis, and they are emerging as important signaling molecules connected to the classical signaling pathways, the cytoskeleton, the cell cycle control, and tumor initiation and promotion. Complex and multifunctional relationships between these entities are being discovered and attributed to specific protein-protein interactions. Theoretical analysis and experimental data indicate that small electronic currents may be carried by semiconduction electron transport along biopolymers. Therefore, it is proposed in this paper that the tumor-promoting effects mentioned above might be under control or modulation of these tiny electronic currents originated in relation to ROS and transported through the cytoskeletal actin microfilament network.

Cell Transformation, Neoplastic↗

PubMed2006

High-field pulsed electron-electron double resonance spectroscopy to determine the orientation of the tyrosyl radicals in ribonucleotide reductase.

Class I ribonucleotide reductases (RNRs) are composed of two subunits, R1 and R2. The R2 subunit contains the essential diferric cluster-tyrosyl radical (Y.) cofactor, and R1 is the site of the conversion of nucleoside diphosphates to 2'-deoxynucleoside diphosphates. It has been proposed that the function of the tyrosyl radical in R2 is to generate a transient thiyl radical (C439.) in R1 over a distance of 35 A, which in turn initiates the reduction process. EPR distance measurements provide a tool with which to study the mechanism of radical initiation in class I RNRs. These types of experiments at low magnetic fields and frequencies (0.3 T, 9 GHz) give insight into interradical distances and populations. We present a pulsed electron-electron double resonance (PELDOR) experiment at high EPR frequency (180-GHz electron Larmor frequency) that detects the dipolar interaction between the Y.s in each protomer of RNR R2 from Escherichia coli. We observe a correlation between the orientation-dependent dipolar interaction and their resolved g-tensors. This information has allowed us to define the relative orientation of two radicals embedded in the active homodimeric protein in solution. This experiment demonstrates that high-field PELDOR spectroscopy is a powerful tool with which to study the assembly of proteins that contain multiple paramagnetic centers.

Dimerization↗

PubMed1974

Investigation of very slowly tumbling spin labels by nonlinear spin response techniques: theory and experiment for stationary electron electron double resonance.

The investigation of very slowly tumbling spin labels by nonlinear electron spin response techniques is discussed. Such techniques permit characterization of rotational processes with correlation times from 10(-3) to 10(-7) sec even though the linear spin response (ESR) technique is insensitive to motion in this region. Nonlinear techniques fall into two categories: (a) Techniques (referred to as passage techniques) in which the distribution of saturation throughout the spin system is determined both by the applied magnetic field modulation of the resonance condition and by the modulation of the resonance frequency induced by the molecular motion. The time dependence of this distribution produces phase and amplitude changes in the observed signals. (b) Techniques that measure the integral of the distribution function of the time required for saturated spin packets to move between pumped and observed portions of the spectrum [stationary and pulsed electron electron double resonance (ELDOR) techniques]. Quantitative analysis of passage ESR and stationary ELDOR techniques can be accomplished employing a density matrix treatment that explicitly includes the interaction of the spins with applied radiation and modulation fields. The effect of molecular motion inducing a random modulation of the anisotropic spin interactions can be calculated by describing the motion by the diffusion equation appropriate to the motional model assumed. For infinitesimal steps the eigen-functions of the diffusion operator are known analytically, while for random motion of arbitrary step size they are determined by diagonalizing the transition matrix appropriate for the step model used. The present communication reports investigation of the rotational diffusion of the spin label probes 2,2,6,6-tetramethyl-4-piperidinol-1-oxyl and 17beta-hydroxy-4',4'-dimethylspiro-[5alpha-androstane-3,2'-oxazolidin]-3'-oxyl in sec-butylbenzene. Experimental spectra are compared with computer simulations of spectra carried out for isotropic Brownian (limit of infinitesimal step size) and free diffusion (arbitrary step size) models.

Benzene Derivatives↗

PubMed1977

Fundamental aspects of electron transfer: experimental verification of vibronically coupled electron tunneling.

A detailed investigation of the applicability of the vibronically coupled electron tunneling theory in biomolecules can be made by a quantitative study of a weak charge-transfer optical absorption band that has been predicted by this theory. The measurement of the position, width, and molar extinction coefficient of this band is examined in the bound model system cytochrome c-Fe(CN)6 at room temperature and demonstrates that the theory is quantitatively applicable in this system. The size of the parameters measured is typical of those relevant for biological electron transfers. The comparisons lend credibility to the generality of vibronically coupled electron theory in biomolecules and its short transfer distances.

Animals↗

PubMed2006

Mass analysis by scanning transmission electron microscopy and electron diffraction validate predictions of stacked beta-solenoid model of HET-s prion fibrils.

Fungal prions are infectious filamentous polymers of proteins that are soluble in uninfected cells. In its prion form, the HET-s protein of Podospora anserina participates in a fungal self/non-self recognition phenomenon called heterokaryon incompatibility. Like other prion proteins, HET-s has a so-called "prion domain" (its C-terminal region, HET-s-(218-289)) that is responsible for induction and propagation of the prion in vivo and for fibril formation in vitro. Prion fibrils are thought to have amyloid backbones of polymerized prion domains. A relatively detailed model has been proposed for prion domain fibrils of HET-s based on a variety of experimental constraints (Ritter, C., Maddelein, M. L., Siemer, A. B., Luhrs, T., Ernst, M., Meier, B. H., Saupe, S. J., and Riek, R. (2005) Nature 435, 844-848). To test specific predictions of this model, which envisages axial stacking of beta-solenoids with two coils per subunit, we examined fibrils by electron microscopy. Electron diffraction gave a prominent meridional reflection at (0.47 nm)(-1), indicative of cross-beta structure, as predicted. STEM (scanning transmission electron microscopy) mass-per-unit-length measurements yielded 1.02 +/- 0.16 subunits per 0.94 nm, in agreement with the model prediction (1 subunit per 0.94 nm). This is half the packing density of approximately 1 subunit per 0.47 nm previously obtained for fibrils of the yeast prion proteins, Ure2p and Sup35p, whence it follows that the respective amyloid architectures are basically different.

Amyloid↗