Reduced Horse Heart Cytochrome Research Articles

Autoxidation of Reduced Horse Heart Cytochrome c Catalyzed by Cardiolipin-Containing Membranes.

Visible circular dichroism, absorption, and fluorescence spectroscopy were used to probe the binding of horse heart ferrocytochrome c to anionic cardiolipin (CL) head groups on the surface of 1,1',2,2'-tetraoleoyl cardiolipin (TOCL)/1,2-dioleoyl-sn-glycero-3-phosphocholine (DOPC) (20%:80%) liposomes in an aerobic environment. We found that ferrocytochrome c undergoes a conformational transition upon binding that leads to complete oxidation of the protein at intermediate and high CL concentrations. At low lipid concentrations, the protein maintains a structure that is only slightly different from its native one, whereas an ensemble of misligated predominantly hexacoordinated low-spin states become increasingly populated at high lipid concentrations. A minor fraction of conformations with either high- or quantum-mixed-spin states were detected at a CL to protein ratio of 200 (the largest one investigated). The population of the non-native state is less pronounced than that found for cytochrome c-CL interactions initiated with oxidized cytochrome c. Under anaerobic conditions, the protein maintains its reduced state but still undergoes some conformational change upon binding to CL head groups on the liposome surface. Our data suggest that CL-containing liposomes function as catalysts by reducing the activation barrier for a Fe2+ → O2 electron transfer. Adding NaCl to the existing cytochrome-liposome mixtures under aerobic conditions inhibits protein autoxidation of ferrocytochrome c and stabilizes the reduced state of the membrane-bound protein.

Role of the C-terminal extension stacked on the re-face of the isoalloxazine ring moiety of the flavin adenine dinucleotide prosthetic group in ferredoxin-NADP+ oxidoreductase from Bacillus subtilis

Ferredoxin-NADP+ oxidoreductase [EC 1.18.1.2] from Bacillus subtilis (BsFNR) is homologous to the bacterial NADPH-thioredoxin reductase, but possesses a unique C-terminal extension that covers the re-face of the isoalloxazine ring moiety of the flavin adenine dinucleotide (FAD) prosthetic group. In this report, we utilize BsFNR mutants depleted of their C-terminal residues to examine the importance of the C-terminal extension in reactions with NADPH and ferredoxin (Fd) from B. subtilis by spectroscopic and steady-state reaction analyses. The depletions of residues Y313 to K332 (whole C-terminal extension region) and S325 to K332 (His324 intact) resulted in significant increases in the catalytic efficiency with NADPH in diaphorase assay with ferricyanide, whereas Km values for ferricyanide were increased. In the cytochrome c reduction assay in the presence of B. subtilis ferredoxin, the S325–K332 depleted mutant displayed a significant decrease in the turnover rate with an Fd concentration range of 1–10 μM. The Y313–K332 depleted mutant demonstrated an increase in the rate of the direct reduction of horse heart cytochrome c in the absence of Fd. These data indicated that depletion of the C-terminal extension plays an important role in the reaction of BsFNR with ferredoxin.

Backbone 1H, 13C, and 15N chemical shift assignments of reduced horse heart cytochrome c

Backbone 1H, 13C, and 15N chemical shift assignments of reduced horse heart cytochrome c

Physiological Importance of Cytochrome c Peroxidase in Ethanologenic Thermotolerant Zymomonas mobilis

Zymomonas mobilis ZmCytC as a peroxidase bearing three heme c-binding motifs was investigated with ΔZmcytC constructed. The mutant exhibited filamentous shapes and reduction in growth under a shaking condition at a high temperature compared to the parental strain and became hypersensitive to exogenous H₂O₂. Under the same condition, the mutation caused increased expression of genes for three other antioxidant enzymes. Peroxidase activity, which was detected in membrane fractions with ubiquinol-1 as a substrate but not with reduced horse heart cytochrome c, was almost abolished in ΔZmcytC. Peroxidase activity was also detected with NADH as a substrate, which was significantly inhibited by antimycin A. NADH oxidase activity of ΔZmcytC was found to be about 80% of that of the parental strain. The results suggest the involvement of ZmCytC in the aerobic respiratory chain via the cytochrome bc₁ complex in addition to the previously proposed direct interaction with ubiquinol and its contribution to protection against oxidative stress.

Conformational Heterogeneity of Cytochrome c Probed by Resonance Raman Spectroscopy as a function of pH and Temperature

The oxidized state of cytochrome c is a subject of continuous interest due to the multitude of conformations the protein adopts. Despite numerous studies, native and non-native states of ferricytochrome c have not been comprehensively analyzed regarding the influence of solvent conditions on structure, function, and thermodynamic equilibrium. Compared to the oxidized state, the reduced state of cytochrome c is rather stable since it adopts one conformation over a broad pH (2-12) and temperature (∼100°C) range. In the current study, we have analyzed the high frequency (1200-1800cm−1) Soret and Q-band resonance Raman spectra of oxidized and reduced horse heart cytochrome c (hhc) in terms of depolarization ratios and normalized Raman intensities, as a function of increasing pH and temperature. Initial analysis of our data collected for the Soret band resonance indicates that the depolarization ratios of A1g modes v2, v3, and v4 of the native state III and the alkaline state IV are practically identical. They deviate from the respective D4h-value, indicating that B1g (triclinic) or B2g (rhombic) type distortions affect the Raman tensor. For state III, the depolarization ratios of B1g modes v10, v11, and v13 deviate substantially from the expectation value indicating that these modes are affected by a large B1g type distortion. The alkaline III-> IV transition moves the depolarization ratios of these B1g modes closer to their D4h-value of 0.75, indicating a substantial decrease of the rhombic B1g-type deformation. Data from pH 12, which favor the population of the V-state, suggest a substantial increase of rhombic deformations, apparently caused by the replacement of a lysine by a hydroxyl ligand. Currently we are analyzing the depolarization ratios for the Q band resonance and the high temperature data for both resonances.

Non-Native Heme−Histidine Ligation Promotes Microsecond Time Scale Secondary Structure Formation in Reduced Horse Heart Cytochromec

Previous far-UV time-resolved optical rotatory dispersion (TRORD) studies of the sub-millisecond (burst) phase of secondary structure formation in horse and tuna cytochromes c after photoreduction in denaturant suggested that the non-native His18-Fe-His33 heme ligation dominant in the unfolded horse protein facilitated this fast folding better than did the His18-Fe-His26 coordination dominant in tuna [Chen, E., Goldbeck, R.A., and Kliger, D.S. (2003) J. Phys. Chem. A 107, 8149-8155; Chen, E., Goldbeck, R.A., and Kliger, D.S. (2004) J. Am. Chem. Soc. 126, 11175-11181]. Whether His18-Fe-His33 coordination actually facilitates fast secondary structure formation or just slows folding less than His18-Fe-His26 coordination is probed by examining the double histidine mutant H26QH33N of horse heart cytochrome c. The fast folding phase is absent in H26QH33N, indicating that His18-Fe-His33 misligation does promote fast secondary structure formation, as does His18-Fe-His26 to a lesser extent. His33 may be better able to facilitate folding because it is not as constrained by hydrogen bonding interactions in the denatured state as is His26. A greater flexibility, not only because of weakened or disrupted Van der Waals interactions in the presence of guanidine hydrochloride (GuHCl) but also because of its position relative to His18, may allow His33 to ligate to the heme group more easily than His26. These results are discussed along with the results of far-UV CD and Soret and visible region MCD measurements, which were performed to probe heme ligation in H26QH33N and to understand how GuHCl affects its folding stability and cooperativity.

Cytochrome c in a Dry Trehalose Matrix: Structural and Dynamical Effects Probed by X-Ray Absorption Spectroscopy

We report on the structure and dynamics of the Fe ligand cluster of reduced horse heart cytochrome c in solution, in a dried polyvinyl alcohol (PVA) film, and in two trehalose matrices characterized by different contents of residual water. The effect of the solvent/matrix environment was studied at room temperature using Fe K-edge x-ray absorption fine structure (XAFS) spectroscopy. XAFS data were analyzed by combining ab initio simulations and multi-parameter fitting in an attempt to disentangle structural from disorder parameters. Essentially the same structural and disorder parameters account adequately for the XAFS spectra measured in solution, both in the absence and in the presence of glycerol, and in the PVA film, showing that this polymer interacts weakly with the embedded protein. Instead, incorporation in trehalose leads to severe structural changes, more prominent in the more dried matrix, consisting of 1), an increase up to 0.2 Å of the distance between Fe and the imidazole N atom of the coordinating histidine residue and 2), an elongation up to 0.16 Å of the distance between Fe and the fourth-shell C atoms of the heme pyrrolic units. These structural distortions are accompanied by a substantial decrease of the relative mean-square displacements of the first ligands. In the extensively dried trehalose matrix, extremely low values of the Debye Waller factors are obtained for the pyrrolic and for the imidazole N atoms. This finding is interpreted as reflecting a drastic hindering in the relative motions of the Fe ligand cluster atoms and an impressive decrease in the static disorder of the local Fe structure. It appears, therefore, that the dried trehalose matrix dramatically perturbs the energy landscape of cyrochrome c, giving rise, at the level of local structure, to well-resolved structural distortions and restricting the ensemble of accessible conformational substates.

NO Reductase from Bacillus azotoformans Is a Bifunctional Enzyme Accepting Electrons from Menaquinol and a Specific Endogenous Membrane-Bound Cytochrome c551

Bacillus azotoformans is a Gram-positive denitrifying soil bacterium, which is capable of respiring nitrate, nitrite, nitric oxide, and nitrous oxide under anaerobic conditions. It contains a unique menaquinol-dependent nitric oxide reductase (qCu(A)NOR) with a Cu(A) center in its small subunit. The qCu(A)NOR exhibits menaquinol-dependent NO reductase activity, whereas reduced horse heart cytochrome c was inactive. Here we describe the purification of three membrane-bound c cytochromes from B. azotoformans. Their apparent molecular masses on SDS-PAGE are approximately 11 kDa. At neutral pH, these c cytochromes are negatively charged and the E(m) for all is close to 150 mV. Only one of these c cytochromes, which exhibits an alpha-band maximum at 551 nm, acts as a direct electron donor to qCu(A)NOR. Further investigation demonstrated that this cytochrome c(551) possesses two lipoyl moieties, which presumably function to anchor it to the membrane. Steady-state kinetic studies reveal that cytochrome c(551) is a noncompetitive inhibitor of NO reduction when menaquinol is used as an electron donor. This finding points to the presence of two different electron donation pathways in qCu(A)NOR. The ability of qCu(A)NOR to accept electrons from both menaquinol and cytochrome c(551) might be related to the regulation of the rate of NO reduction especially as a defense mechanism of B. azotoformans against the toxicity of NO. Growth experiments in batch culture indeed show that B. azotoformans is highly NO tolerant, in contrast to, for example, Paracoccus denitrificans that has a monofunctional cytochrome c-dependent NOR. We propose that the menaquinol pathway, which has a 4-fold greater maximal activity than the pathway via cytochrome c(551), is used for NO detoxification, whereas electron donation via the endogenous cytochrome c involves the cytochrome b(6)f complex serving the bioenergetic needs of the organism.

Solution Structure Of Reduced Horse Heart Cytochrome c in 30% Acetonitrile Solution

Solution Structure Of Reduced Horse Heart Cytochrome c in 30% Acetonitrile Solution

Mutations in the docking site for cytochrome c on the Paracoccus heme aa3 oxidase. Electron entry and kinetic phases of the reaction.

Introducing site-directed mutations in surface-exposed residues of subunit II of the heme aa3 cytochrome c oxidase of Paracoccus denitrificans, we analyze the kinetic parameters of electron transfer from reduced horse heart cytochrome c. Specifically we address the following issues: (a) which residues on oxidase contribute to the docking site for cytochrome c, (b) is an aromatic side chain required for electron entry from cytochrome c, and (c) what is the molecular basis for the previously observed biphasic reaction kinetics. From our data we conclude that tryptophan 121 on subunit II is the sole entry point for electrons on their way to the CuA center and that its precise spatial arrangement, but not its aromatic nature, is a prerequisite for efficient electron transfer. With different reaction partners and experimental conditions, biphasicity can always be induced and is critically dependent on the ionic strength during the reaction. For an alternative explanation to account for this phenomenon, we find no evidence for a second cytochrome c binding site on oxidase.

Temperature and Driving Force Dependence of the Folding Rate of Reduced Horse Heart Cytochrome c

Utilizing the stability difference between the ferro and ferri forms of horse heart cytochrome c (cyt c), folding of reduced cyt c was triggered by laser-induced reduction of unfolded oxidized cyt c. Measurements were made of the kinetics of the main folding phase (1 ms-10 s) in which collapsed reduced cyt c transforms to the native conformation. The folding rates were studied extensively as a function of temperature (5-75 degrees C) and guanidine hydrochloride (GdnHCl) concentration (1.6-4.9 M). At constant [GdnHCl], the Arrhenius plot of the folding rate constant (k) is nonlinear. At temperatures above 40 degrees C, the decrease in protein stability counteracts the expected increase in folding rate. Introducing free energy (DeltaG), derived from protein stability data, into the Eyring and Arrhenius equations leads to: ln k = ln(k(b)T/h) + DeltaS()/R - DeltaH()/RT - theta(m)DeltaG/RT = ln A - E(a)/RT - theta(m)DeltaG/RT, where theta(m) is the ratio between the denaturant dependence of the folding rate and the stability. By using this equation at constant DeltaG [or constant equilibrium constant (K)], linear Arrhenius plots are obtained. For the main folding phase of reduced cyt c, a positive DeltaS() is obtained indicating that the transition state is less ordered than the reactant. A model is proposed in which reduced cyt c first collapses into a compact intermediate, which needs to expand to reach the transition state of the rate-limiting folding reaction.

Ruthenium Bisbipyridine Complexes of Horse Heart Cytochrome c: Characterization and Comparative Intramolecular Electron-Transfer Rates Determined by Pulse Radiolysis and Flash Photolysis

The reaction of [Ru(bpy)2L(H2O)]2+ (bpy = 2,2'-bipyridine, L = imidazole, water) with reduced horse heart cytochrome c results in coordination of [RuII(bpy)2L] at the His 33 and His 26 sites. Coordination at the His 33 site gave a diastereomeric [RuII(bpy)2L]-His-cyt c(II) mixture favoring the lambda-Ru form regardless of the substituent on the bipyridine ligands, while substitution at the more buried His 26 site gave an isomeric distribution that varies according to the substituent on the bipyridine ligands. The diastereomeric aquoproteins (L = H2O) are distinguished by their redox potentials and their conversion to the corresponding fluorescent imidazole proteins. Intramolecular electron transfer between the reduced ruthenium bipyridine and cyt c(III) in [RuII(bpy.)(bpy)L]-His33-cyt c(III) was determined by reductive pulse radiolysis using the aqueous electron as a reducing agent, kret = (2.0 +/- 0.3) x 10(5) s-1, and kret is independent of the sixth ligand L = H2O, imidazole. In addition, the rate constant for intramolecular electron transfer from cyt c(II) to the ruthenium(III) center in [RuIII(bpy)2L]-His33-cyt c(II) was determined by oxidative pulse radiolysis using azide and carbonate radicals. This rate is very sensitive to the nature of the sixth ligand. When L = H2O, the intramolecular electron-transfer rate for the major diastereomer lambda-cis-[RuIII (bpy)2(H2O)]-His33-cyt c(II) is k = 1.1 x 10(4) s-1 and is independent of pH between 5.6 and 8.3. The minor delta-cis-[RuIII(bpy)2(H2O)]-His33-cyt c(II) isomer has pH-dependent electrochemistry and a lower rate of intramolecular electron transfer. Complete conversion from L = H2O to L = imidazole is slow, requiring more than 7 days in 1 M imidazole. A lower limit (k > 2 x 10(6) s-1) for the intramolecular electron-transfer rate constant in [RuIII(bpy)2(L)]-His33-cyt c(II), L = imidazole, could be obtained by pulse radiolysis in the absence of the slower reacting aquo species. This observation is in agreement with the value of 3 x 10(6) s-1 measured by flash photolysis. Earlier pulse radiolysis experiments primarily measured the aquoligated ruthenium protein, while the flash photolysis experiments measured the imidazole-ligated fraction because it is the only species oxidatively quenched in the photoinduced reactions. Intramolecular electron-transfer reactions for a new series of ruthenium bipyridine complexes, [Ru(dabpy)2L]-His33-cyt c proteins (dabpy = 4,4'-diamino-2,2'-bipyridine) (L = imidazole, pyridine, isonicotinamide and pyrazine), proceed with lower driving force, resulting in slower rate constants amenable to measurement by oxidative pulse radiolysis. The electron-transfer rate constants for this series spanned a wide range of the Marcus log k vs delta G plot.

Proteolysis as a measure of the free energy difference between cytochrome c and its derivatives.

Limited cleavage of oxidized and reduced horse heart cytochrome c (Cyt c) and the azide complex of Cyt c by proteinase K at room temperature yields a single cut within the central loop (36-60 in the sequence). Using an assay that allows spectroscopic evaluation of the fraction of intact protein as a function of time, together with a simple kinetic model for proteolysis, fluctuation opening of the loop can be related to the free energy of the corresponding protein. This allows us to estimate quantitatively the free energy difference between the oxidized form of Cyt c and other states using proteolysis as a probe. The results we obtain indicate that oxidized Cyt c is 2.0 kcal mol(-1) less stable than the reduced form, and 0.07 kcal mol(-1) is more stable than the Cyt c: azide complex at 25 degrees C. These values agree in magnitude with results from hydrogen exchange and unfolding studies, suggesting that the stability of a protein can be directly related to its structural dynamics.

Some characteristics of cytochrome f in the cyanobacterium Phormidium laminosum: its sequence and charge properties in the reaction with plastocyanin

Part of the petCA operon was cloned and the sequence of the cytochrome f gene from the moderately thermophilic cyanobacterium Phormidium laminosum determined. A partial sequence of the petC gene encoding the Rieske iron-sulphur protein was also obtained. The cytochrome f gene encodes a mature protein of 385 residues and a leader sequence of 45 residues. The mature protein contains several acidic or neutral residues corresponding to basic residues in the turnip protein. Some of the latter are thought to be important for the interaction with plastocyanin via its ‘eastern’ face. Many of the corresponding residues on the eastern face of P. laminosum plastocyanin are either basic or neutral instead of acidic. These comparisons suggested that the local charges on P. laminosum cytochrome f that are important for its interaction with the homologous plastocyanin may be negative rather than positive. The importance of acidic groups was confirmed by measuring the rates of reduction of horse heart cytochrome c and P. laminosum and spinach plastocyanins by the cytochrome bf complex isolated from P. laminosum. P. laminosum plastocyanin gave the highest rates, which decreased at high ionic strength, confirming the importance of positive local charges on this protein. When extrapolated to infinite ionic strength the rates observed with the two kinds of plastocyanin were similar, but cytochrome c became unreactive. An optimum was observed in the ionic strength response with P. laminosum plastocyanin.

Oxidation of Fe(II) horse heart cytochrome c by ultrasound waves

In aqueous solution, acoustically induced cavitation produces the collapse of bubbles containing gas and water-vapor, producing free radicals by the homolysis of the water molecules. Generally, under these extreme physical conditions, the secondary and tertiary structures of the proteins result are altered and denaturation phenomena are often observed. This paper discusses the evidence that, in the presence of argon and in oxygen-free experimental environment, the reduced horse heart cytochrome c, instead of undergoing a denaturation process, is oxidized to ferric-cytochrome c. Kinetic and circular dichroism measurements performed after ultrasound irradiation at a frequency of 38 kHz are reported. A possible correlation between ultrasound induced molecular damage to the tertiary structure of the proteins and their own extension of helix content is also hypothesized.

Thiosulfate oxidation by sulfur-grown Thiobacillus thiooxidans cells, cell-free extracts, and thiosulfate-oxidizing enzyme

The oxidation of thiosulfate by Thiobacillus thiooxidans grown on sulfur was studied in cells, cell-free extracts, and a thiosulfate-oxidizing enzyme system. Thiosulfate was oxidized to tetrathionate by cells treated with N-ethylmaleimide with a pH optimum at 2.3. The cell-free extracts also oxidized thiosulfate with the same pH optimum and O2 consumption. Untreated cells, on the other hand, oxidized thiosulfate to sulfite in the presence of 2-n-heptyl-4-hydroxyquinoline N-oxide, an inhibitor of sulfite oxidation. The cells treated with N-ethylmaleimide showed two Km values for thiosulfate while the cell-free system showed only one Km. The Km value for thiosulfate generally increased with the increasing pH. A soluble thiosulfate-oxidizing enzyme system was extracted from the cells at pH 2.5 in the presence of 1 M ammonium sulfate by passage through a French pressure cell. The system contained a native cytochrome c that was reduced by thiosulfate at pH 2.5 and a thiosulfate-ferricyanide oxidoreductase activity with a pH optimum around 2.0. The acidic extract also contained a component that reduced horse heart cytochrome c at a neutral pH. The reduction at an acidic pH required sulfite.Key words: thiosulfate oxidation, Thiobacillus thiooxidans, tetrathionate, sulfite.

Electron-transfer from cytochrome c to ascorbate oxidase and its type 2 copper-depleted derivatives

Rate constants have been determined for the electron-transfer reactions between reduced horse heart cytochrome c and resting cucumber ascorbate oxidase as functions of pH, ionic strength, and temperature. The second-order rate constant for the oxidation of reduced cytochrome c was determined to be k = 820 M −1 s −1 in 0.2 M phosphate buffer at pH 6.0 and 25°C. The activation parameters were estimated to be ΔH ‡ = 5 kJ mol −1 and ΔS ‡ = −188 Jmol −1 K −1. The rate constants increased with decreasing buffer concentration, indicating that the electron-transfer from cytochrome c to ascorbate oxidase is realized by the local electrostatic interaction between them in spite of the reaction between positively charged proteins. Reactions of type 2 copper-depleted ascorbate oxidase whose type 3 coppers were in the reduced or oxidized form indicated that the type 1 copper site accepts an electron from cytochrome c. The reaction rate was remarkably increased with decreasing pH for both the native enzyme and derivatives. Further, on addition of hexametaphosphate anion the rate of the electron-transfer decreased because the association of both proteins to realize the electron-transfer was inhibited due to a change in distribution of the local charge on the protein surface(s).

Structural water in oxidized and reduced horse heart cytochrome c

The existence of structural water in the interior of both oxidized and reduced horse-heart cytochrome c in solution is demonstrated using nuclear magnetic resonance spectroscopy. Six water molecules have been located in ferrocytochrome c and five in ferricytochrome c, with residence times greater than a few hundred picoseconds. Two water molecules are located in the haem crevice, one of which is found to undergo a large change in position with a change of oxidation state. Both of these observations indicate that buried structural waters in the haem crevice have, by microscopic dielectric effects, significant roles in the setting of the solvent reorganization energy associated with electron transfer.

Kinetics of electron transfer between cytochrome c and laccase.

Rate constants have been determined for the electron-transfer reactions between reduced horse heart cytochrome c and resting Rhus vernicifera laccase as a function of pH, ionic strength, and temperature. The second-order rate constant for the oxidation of reduced cytochrome c was determined to be k = 125 M-1 s-1 at 25 degrees C in 0.2 M phosphate buffer at pH 6.0 with the activation parameters delta H++ = 16.2 kJ mol-1 and delta S++ = 28.9 J mol-1 K-1. The rate constants increased with decreasing buffer concentration, indicating that electron transfer from cytochrome c to laccase is favored by the local electrostatic interaction (ZAZB = -0.9 at pH 6 and -1.3 at pH 4.8) between the basic proteins with positive net charges. From the increase of the rate of electron transfer with decreasing pH, one of the driving forces of the reaction was suggested to be the difference in the redox potentials between the type 1 copper in laccase and the central iron in cytochrome c. Further, on addition of one hexametaphosphate anion per cytochrome c molecule, the rate of the electron transfer was increased, probably because the association of both proteins became more favorable.

Reduction of cytochrome c at a lipid bilayer modified electrode

The reduction of horse heart cytochrome c has been investigated at a platinum electrode modified with a lipid bilayer membrane (BLM) which immobilized vinyl ferrocene as an electron mediator. The current-voltage curves show that the direct electrochemistry of cytochrome c at the metal electrode occurs quite efficiently. An adsorption equilibrium constant for cytochrome at the BLM surface, as well as an electron transfer rate constant between the protein and the modified electrode have been estimated from these results. The values of both parameters are much higher than those reported with other types of electrode modifications, indicating that a lipid bilayer-modified platinum electrode system using vinyl ferrocene as a mediator provides substantial improvements in electrochemical activity of cytochrome c at metal electrodes. The potential for modifying and utilizing this new class of “biomembrane-like” electrode surface for metalloprotein electrochemistry is briefly discussed.