Dioxygenation Product Research Articles

Ultrathin covalent organic framework nanosheets for enhanced photocatalytic water oxidation.

Photocatalytic water oxidation is a key half-reaction for various solar-to-fuel conversion systems but requires simultaneous water affinity and hole accumulation at the photocatalytic site. Here, we present the rational design and synthesis of an ionic-type covalent organic framework (COF) named tetraphenylporphyrin cobalt and cobalt bipyridine complex (CoTPP-CoBpy3) COF, combining cobalt porphyrin and cobalt bipyridine building blocks as a photocatalyst for water oxidation. The good dispersibility of porous large-size (>2 micrometers) COF nanosheets (≈1.45 nanometers) facilitates local water collection; the ultrafast triplet-state charge transfer (1.8 picoseconds) and prolonged charge separation (1.2 nanoseconds) further contribute to the efficient accumulation of holes in the CoTPP moiety, leading to a photocatalytic dioxygen production rate of 7323 micromoles per gram per hour. Moreover, we have identified an end-on superoxide radical (O2·) intermediate at the active site of the CoTPP moiety and proposed an electron-intermediate cascade mechanism that elucidates the synergistic coupling of electron relay (S1-T1-T1') and intermediate evolution during the photocatalytic process.

HCO3−-mediated highly efficient photoelectrochemical dioxygenation of arylalkenes: triple roles of HCO3−-derived radicals

HCO3−-mediated highly efficient photoelectrochemical dioxygenation of arylalkenes coupled with the hydrogen evolution reaction: triple roles of HCO3−-derived radicals.

Asymmetric Radical Oxyboration of β‐Substituted Styrenes via Late‐Stage Stereomutation

AbstractHerein, we report an unprecedented copper‐catalyzed highly enantio‐ and diastereoselective radical oxyboration of β‐substituted styrenes. The lynchpin of success is ascribed to the development of a late‐stage stereomutation strategy, which enables enantioenriched cis‐isomers among a couple of early‐generated diastereomers to be converted into trans‐isomer counterparts, thus fulfilling high diastereocontrol; while the degree of enantio‐differentiation is determined by the borocupration process of the C=C bond. This reaction provides an efficient protocol to access enantioenriched trans‐1,2‐ dioxygenation products. The value of this method has further been highlighted in a diversity of follow‐up stereospecific transformations and further modifying complex molecules.

Asymmetric Radical Oxyboration of β-Substituted Styrenes via Late-Stage Stereomutation.

Herein, we report an unprecedented copper-catalyzed highly enantio- and diastereoselective radical oxyboration of β-substituted styrenes. The lynchpin of success is ascribed to the development of a late-stage stereomutation strategy, which enables enantioenriched cis-isomers among a couple of early-generated diastereomers to be converted into trans-isomer counterparts, thus fulfilling high diastereocontrol; while the degree of enantio-differentiation is determined by the borocupration process of the C=C bond. This reaction provides an efficient protocol to access enantioenriched trans-1,2- dioxygenation products. The value of this method has further been highlighted in a diversity of follow-up stereospecific transformations and further modifying complex molecules.

Nuclear spin effects in biological processes

Traditionally, nuclear spin is not considered to affect biological processes. Recently, this has changed as isotopic fractionation that deviates from classical mass dependence was reported both in vitro and in vivo. In these cases, the isotopic effect correlates with the nuclear magnetic spin. Here, we show nuclear spin effects using stable oxygen isotopes (16O, 17O, and 18O) in two separate setups: an artificial dioxygen production system and biological aquaporin channels in cells. We observe that oxygen dynamics in chiral environments (in particular its transport) depend on nuclear spin, suggesting future applications for controlled isotope separation to be used, for instance, in NMR. To demonstrate the mechanism behind our findings, we formulate theoretical models based on a nuclear-spin-enhanced switch between electronic spin states. Accounting for the role of nuclear spin in biology can provide insights into the role of quantum effects in living systems and help inspire the development of future biotechnology solutions.

Determination of respiration and photosynthesis fractionation factors for atmospheric dioxygen inferred from a vegetation–soil–atmosphere analogue of the terrestrial biosphere in closed chambers

Abstract. The isotopic composition of dioxygen in the atmosphere is a global tracer which depends on the biosphere flux of dioxygen toward and from the atmosphere (photosynthesis and respiration) as well as exchanges with the stratosphere. When measured in fossil air trapped in ice cores, the relative concentration of 16O, 17O, and 18O of O2 can be used for several applications such as ice core dating and past global productivity reconstruction. However, there are still uncertainties about the accuracy of these tracers as they depend on the integrated isotopic discrimination of different biological processes of dioxygen production and uptake, for which we currently have very few independent estimates. Here we determined the respiration and photosynthesis fractionation factors for atmospheric dioxygen from experiments carried out in a replicated vegetation–soil–atmosphere analogue of the terrestrial biosphere in closed chambers with growing Festuca arundinacea. The values for 18O discrimination during soil respiration and dark respiration in leaves are equal to -12.3±1.7 ‰ and -19.1±2.4 ‰, respectively. In these closed biological chambers, we also found a value attributed to terrestrial photosynthetic isotopic discrimination equal to +3.7±1.3 ‰. This last estimate suggests that the contribution of terrestrial productivity in the Dole effect may have been underestimated in previous studies.

Singlet Dioxygen ¹O₂, its Generation, Physico-Chemical Properties and its Possible Hormetic Behavior in Cancer Therapy

Singlet dioxygen 1O2 is one excited state among the three other possible spectroscopic states of molecular oxygen. Here, we first describe the use of published spectroscopic data and thermodynamic modeling based on irreversible entropy production. Such concepts are further applied to the synthesis of singlet dioxygen and its reactions with crucial biological molecules. In a last section, we suggest that singlet dioxygen and ozone may be responsible for the success of radiation therapy, that has been used to treat cancer successfully for over 120 years. Its precise mechanism of action remains controversial. We thus aim to clarify the role of singlet oxygen in radiotherapy and chemotherapy. A partial conversion of ionizing radiation in the body into thermal photons could be assumed. The antitumor effect may involve these thermal photons, such as the one delivered by red/infrared sources. Thermal photons (wavelengths of 635 nm and 1270 nm) convert triplet dioxygen into singlet dioxygen by changing the spin of its outer electrons. Despite its short half-life, Singlet dioxygen is responsible for the activation of multiple free radicals (such as hydrogen peroxide), which may target proteins and DNA, induce either apoptosis or oxidative phosphorylation. At moderate concentrations, thermodynamic data suggests that singlet dioxygen may readily react with water to form a potent pro-apoptotic molecule (ozone), thus decreasing cancer growth. However, at high concentration cytotoxic effects against all kind of cells occurs. This strongly suggests a non-linear hormetic behavior of singlet dioxygen. It is also proposed that cytotoxic chemotherapy induces the same free radicals that singlet dioxygen does. There are also other ways to enhance the production of singlet dioxygen, such as phototherapy using Methylene Blue for instance. As a source of reactive oxygen species (ROS), singlet oxygen could thus be a common agent active both in radiotherapy and chemotherapy. It is probable that the activity of radiation therapy and chemotherapy may be mediated by the conversion of triplet to singlet oxygen. This may explain the oxygen effect such as described in radiotherapy and chemotherapy.

Adsorption Study of Main Gas Products from Water Radiolysis on 4A Zeolite by Numerical Simulations

This work is motivated by the results obtained during a study on the tritiated water adsorbed in zeolite [L. Frances et al., J. Phys. Chem. C, 119, 28462 (2015)]. The decomposition of water by radiolysis leads to the production of dioxygen and dihydrogen as main stable products. By studying the evolution of their quantities of matter, one can note an increase in a first stage, followed by a decrease after a few hundred days of storage until complete disappearance. This interesting process depends on the water loading ratios, expressed in mass percentage, lying between 4%, and 19%; such a phenomenon is not observed in saturated zeolite. Our goal is to determine, through numerical simulations, how this disappearance, which is associated with the recombination of the radiolysis products, occurs by making a microscopic study on the adsorption of H2O, H2, and O2 molecules on 4A zeolite (Z4A). Computational physics is useful to understand the effects of molecule adsorption on its structure and also to closely examine the molecule-zeolite and molecule-molecule interactions. Indeed, different simulation methods are used from static to dynamic studies employing both quantum and classical tools with the periodical structure of Z4A. To summarize, the adsorption of molecules from the radiolysis of water are studied according to different points of view (quantum and classical) using various numerical simulation tools, such as density functional theory for ab initio structural optimization and energy calculation, Monte Carlo to study the distribution of the adsorbed molecules in the zeolite, and molecular dynamics to follow the evolution of the system (molecule + zeolite) over time depending on the temperature, in order to extract as much information as possible (structurally, statistically, energy, electronically) to understand the main problematic of this work: How do stable molecules issued from radiolysis recombine in Z4A?

Radioprotective role of cyanobacterial phycobilisomes

Cyanobacteria are thought to be responsible for pioneering dioxygen production and the so-called “Great Oxygenation Event” that determined the formation of the ozone layer and the ionosphere restricting ionizing radiation levels reaching our planet, which increased biological diversity but also abolished the necessity of radioprotection. We speculated that ancient protection mechanisms could still be present in cyanobacteria and studied the effect of ionizing radiation and space flight during the Foton-M4 mission on Synechocystis sp. PCC6803. Spectral and functional characteristics of photosynthetic membranes revealed numerous similarities of the effects of α-particles and space flight, which both interrupted excitation energy transfer from phycobilisomes to the photosystems and significantly reduced the concentration of phycobiliproteins. Although photosynthetic activity was severely suppressed, the effect was reversible, and the cells could rapidly recover from the stress. We suggest that the actual existence and the uncoupling of phycobilisomes may play a specific role not only in photo-, but also in radioprotection, which could be crucial for the early evolution of Life on Earth.

Electrochemical Water Oxidation and Stereoselective Oxygen Atom Transfer Mediated by a Copper Complex.

Water oxidation by copper-based complexes to form dioxygen has attracted attention in recent years, with the aim of developing efficient and cheap catalysts for chemical energy storage. In addition, high-valent metal-oxo species produced by the oxidation of metal complexes in the presence of water can be used to achieve substrate oxygenation with the use of H2 O as an oxygen source. To date, this strategy has not been reported for copper complexes. Herein, a copper(II) complex, [(RPY2)Cu(OTf)2 ] (RPY2=N-substituted bis[2-pyridyl(ethylamine)] ligands; R=indane; OTf=triflate), is used. This complex, which contains an oxidizable substrate moiety (indane), is used as a tool to monitor an intramolecular oxygen atom transfer reaction. Electrochemical properties were investigated and, upon electrolysis at 1.30 V versus a normal hydrogen electrode (NHE), both dioxygen production and oxygenation of the indane moiety were observed. The ligand was oxidized in a highly diastereoselective manner, which indicated that the observed reactivity was mediated by metal-centered reactive species. The pH dependence of the reactivity was monitored and correlated with speciation deduced from different techniques, ranging from potentiometric titrations to spectroscopic studies and DFT calculations. Water oxidation for dioxygen production occurs at neutral pH and is probably mediated by the oxidation of a mononuclear copper(II) precursor. It is achieved with a rather low overpotential (280 mV at pH 7), although with limited efficiency. On the other hand, oxygenation is maximum at pH 8-8.5 and is probably mediated by the electrochemical oxidation of an antiferromagnetically coupled dinuclear bis(μ-hydroxo) copper(II) precursor. This constitutes the first example of copper-centered oxidative water activation for a selective oxygenation reaction.

Electrolytic CO2 Reduction in Tandem with Oxidative Organic Chemistry.

Electrochemical reduction of CO2 into carbon-based products using excess clean electricity is a compelling method for producing sustainable fuels while lowering CO2 emissions. Previous electrolytic CO2 reduction studies all involve dioxygen production at the anode, yet this anodic reaction requires a large overpotential and yields a product bearing no economic value. We report here that the cathodic reduction of CO2 to CO can occur in tandem with the anodic oxidation of organic substrates that bear higher economic value than dioxygen. This claim is demonstrated by 3 h of sustained electrolytic conversion of CO2 into CO at a copper–indium cathode with a current density of 3.7 mA cm–2 and Faradaic efficiency of >70%, and the concomitant oxidation of an alcohol at a platinum anode with >75% yield. These results were tested for four alcohols representing different classes of alcohols and demonstrate electrolytic reduction and oxidative chemistry that form higher-valued carbon-based products at both electrodes.

Rate and Stability of Photocatalytic Water Oxidation using [Ru(bpy)3]2+ as Photosensitizer

The kinetics of homogeneous photocatalytic water oxidation is reported using [Ru(bpy)3]Cl2 as photosensitizer, Na2S2O8 as sacrificial electron acceptor, and three different water-oxidation catalysts: the ruthenium catalyst [Ru(bda)(isoq)2] ([1], H2bda = 2,2′-bipyridine-6,6′-dicarboxylic acid, isoq = isoquinoline), Co(NO3)2 ([2]), and [Ir(Cp*)(dmiz)(OH)2] ([3], Cp* = pentamethylcyclopentadienyl, dmiz =1,3-dimethylimidazol-2-ylidene). At pH 7.0, in a phosphate buffer and under blue light irradiation, the production of O2 at the catalyst is rate determining when [2] or [3] is used as a water-oxidation catalyst. However, when [1] is used as the catalyst under identical conditions the turnover at the water-oxidation catalyst is not the rate-limiting step of the photocatalysis. Instead, the step limiting dioxygen production is the transfer of electrons from the catalyst to the photooxidized photosensitizer [Ru(bpy)3]3+. Due to the instability of [Ru(bpy)3]3+ in neutral aqueous solutions, slow electron transfer ...

The homopentameric chlorite dismutase from Magnetospirillum sp.

Chlorite dismutase (Cld) is a b-type heme containing enzyme that catalyzes the reduction of chlorite into chloride plus dioxygen. This enzyme has gained attention because it can be used in the development of bioremediation processes, biosensors, and controlled dioxygen production. In the present work, Cld was purified from Magnetospirillum sp. cells cultured anaerobically with acetate/perchlorate until stationary phase. Biochemical, spectroscopic and X-ray crystallography methods showed that Cld from Magnetospirillum sp. is a ~140kDa homopentamer comprising ~27.8kDa monomers. Preliminary X-ray crystallography studies confirmed the quaternary structure and the presence of one b-type heme per monomer. The EPR spectroscopic signature of the as-purified Cld samples is affected by the buffer composition used during the purification. Potassium phosphate buffer is the only buffer that affected neither the spectral nor the kinetic properties of Cld. Kinetic studies in solution revealed that Cld from Magnetospirillum sp. decomposes chlorite at high turnover rates with optimal pH6.0. A temperature below 10°C is required to avoid enzyme inactivation due to cofactor bleaching during turnover, and to achieve full substrate consumption. Cld kinetic parameters were not affected when kinetic assays were performed in the presence of air or under argon atmosphere, but chloride is a weak mixed inhibitor that modifies the EPR signal of as-prepared samples.

Permissivity of the biphenyl-specific aerobic bacterial metabolic pathway towards analogues with various steric requirements.

It has repeatedly been shown that aryl-hydroxylating dioxygenases do not possess a very high substrate specificity. To gain more insight into this phenomenon, we examined two powerful biphenyl dioxygenases, the well-known wild-type enzyme from Burkholderia xenovorans LB400 (BphA-LB400) and a hybrid enzyme, based on a dioxygenase from Pseudomonas sp. B4-Magdeburg (BphA-B4h), for their abilities to dioxygenate a selection of eight biphenyl analogues in which the second aromatic ring was replaced by aliphatic as well as aliphatic/aromatic moieties, reflecting a variety of steric requirements. Interestingly, both enzymes were able to catalyse transformation of almost all of these compounds. While the products formed were identical, major differences were observed in transformation rates. In most cases, BphA-B4h proved to be a significantly more powerful catalyst than BphA-LB400. NMR characterization of the reaction products showed that the metabolite obtained from biphenylene underwent angular dioxygenation, whereas all other compounds were subject to lateral dioxygenation at ortho and meta carbons. Subsequent growth studies revealed that both dioxygenase source strains were able to utilize several of the biphenyl analogues as sole sources of carbon and energy. Therefore, prototype BphBCD enzymes of the biphenyl degradative pathway were examined for their ability to further catabolize the lateral dioxygenation products. All of the ortho- and meta-hydroxylated compounds were converted to acids, showing that this pathway is quite permissive, enabling catalysis of the turnover of a fairly wide variety of metabolites.

Structure and heme-binding properties of HemQ (chlorite dismutase-like protein) from Listeria monocytogenes

Chlorite dismutase-like proteins are structurally closely related to functional chlorite dismutases which are heme b-dependent oxidoreductases capable of reducing chlorite to chloride with simultaneous production of dioxygen. Chlorite dismutase-like proteins are incapable of performing this reaction and their biological role is still under discussion. Recently, members of this large protein family were shown to be involved in heme biosynthesis in Gram-positive bacteria, and thus the protein was renamed HemQ in these organisms. In the present work the structural and heme binding properties of the chlorite dismutase-like protein from the Gram-positive pathogen Listeria monocytogenes (LmCld) were analyzed in order to evaluate its potential role as a regulatory heme sensing protein. The homopentameric crystal structure (2.0Å) shows high similarity to chlorite-degrading chlorite dismutases with an important difference in the structure of the putative substrate and heme entrance channel. In solution LmCld is a stable hexamer able to bind the low-spin ligand cyanide. Heme binding is reversible with KD-values determined to be 7.2μM (circular dichroism spectroscopy) and 16.8μM (isothermal titration calorimetry) at pH 7.0. Both acidic and alkaline conditions promote heme release. Presented biochemical and structural data reveal that the chlorite dismutase-like protein from L. monocytogenes could act as a potential regulatory heme sensing and storage protein within heme biosynthesis.

Production of dioxygen in the dark: dismutases of oxyanions.

O₂-generating reactions are exceedingly rare in biology and difficult to mimic synthetically. Perchlorate-respiring bacteria enzymatically detoxify chlorite (ClO₂(-) ), the end product of the perchlorate (ClO(4)(-) ) respiratory pathway, by rapidly converting it to dioxygen (O₂) and chloride (Cl(-)). This reaction is catalyzed by a heme-containing protein, called chlorite dismutase (Cld), which bears no structural or sequence relationships with known peroxidases or other heme proteins and is part of a large family of proteins with more than one biochemical function. The original assumptions from the 1990s that perchlorate is not a natural product and that perchlorate respiration might be confined to a taxonomically narrow group of species have been called into question, as have the roles of perchlorate respiration and Cld-mediated reactions in the global biogeochemical cycle of chlorine. In this chapter, the chemistry and biochemistry of Cld-mediated O₂generation, as well as the biological and geochemical context of this extraordinary reaction, are described.

Light-dependent production of dioxygen in photosynthesis.

Oxygen, that supports all aerobic life, is abundant in the atmosphere because of its constant regeneration by photosynthetic water oxidation, which is catalyzed by a Mn₄CaO₅ cluster in photosystem II (PS II), a multi subunit membrane protein complex. X-ray and other spectroscopy studies of the electronic and geometric structure of the Mn₄CaO₅ cluster as it advances through the intermediate states have been important for understanding the mechanism of water oxidation. The results and interpretations, especially from X-ray spectroscopy studies, regarding the geometric and electronic structure and the changes as the system proceeds through the catalytic cycle will be summarized in this review. This review will also include newer methodologies in time-resolved X-ray diffraction and spectroscopy that have become available since the commissioning of the X-ray free electron laser (XFEL) and are being applied to study the oxygen-evolving complex (OEC). The femtosecond X-ray pulses of the XFEL allows us to outrun X-ray damage at room temperature, and the time-evolution of the photo-induced reaction can be probed using a visible laser-pump followed by the X-ray-probe pulse. XFELs can be used to simultaneously determine the light-induced protein dynamics using crystallography and the local chemistry that occurs at the catalytic center using X-ray spectroscopy under functional conditions. Membrane inlet mass spectrometry has been important for providing direct information about the exchange of substrate water molecules, which has a direct bearing on the mechanism of water oxidation. Moreover, it has been indispensable for the time-resolved X-ray diffraction and spectroscopy studies and will be briefly reviewed in this chapter. Given the role of PS II in maintaining life in the biosphere and the future vision of a renewable energy economy, understanding the structure and mechanism of the photosynthetic water oxidation catalyst is an important goal for the future.

Isotope effects of enzymatic dioxygenation of nitrobenzene and 2-nitrotoluene by nitrobenzene dioxygenase.

Oxygenation of aromatic rings is a frequent initial step in the biodegradation of persistent contaminants, and the accompanying isotope fractionation is increasingly used to assess the extent of transformation in the environment. Here, we systematically investigated the dioxygenation of two nitroaromatic compounds (nitrobenzene and 2-nitrotoluene) by nitrobenzene dioxygenase (NBDO) to obtain insights into the factors governing its C, H, and N isotope fractionation. Experiments were carried out at different levels of biological complexity from whole bacterial cells to pure enzyme. C, H, and N isotope enrichment factors and kinetic isotope effects (KIEs) were derived from the compound-specific isotope analysis of nitroarenes, whereas C isotope fractionation was also quantified in the oxygenated reaction products. Dioxygenation of nitrobenzene to catechol and 2-nitrotoluene to 3-methylcatechol showed large C isotope enrichment factors, ϵC, of -4.1 ± 0.2‰ and -2.5 ± 0.2‰, respectively, and was observed consistently in the substrates and dioxygenation products. ϵH- and ϵN-values were smaller, that is -5.7 ± 1.3‰ and -1.0 ± 0.3‰, respectively. C isotope fractionation was also identical in experiments with whole bacterial cells and pure enzymes. The corresponding (13)C-KIEs for the dioxygenation of nitrobenzene and 2-nitrotoluene were 1.025 ± 0.001 and 1.018 ± 0.001 and suggest a moderate substrate specificity. Our study illustrates that dioxygenation of nitroaromatic contaminants exhibits a large C isotope fractionation, which is not masked by substrate transport and uptake processes and larger than dioxygenation of other aromatic hydrocarbons.

Activation of H2O2 and superoxide production using a novel cobalt complex based on a polyampholyte

A new catalyst based on Co(II) and a hydrogel with property of polyampholyte was characterized by equilibrium studies of Co(II) uptake, solid-state NMR and energy dispersive X-ray analysis. The matrix derived from methacrylic acid and 2-methylimidazole is easily synthesized in one-spot strategy, and combines coordination properties with chemical resistance. The catalytic activity of this material on H2O2 activation was studied by electron spin resonance, which confirmed the release of superoxide radical. A possible mechanism of interaction involves the simultaneous production of dioxygen, protons and water. The catalytic performance was assessed in the activation of H2O2 for the oxidation of two representative organic compounds of environmental concern. About 70% of methyl orange, a model azo dye, was removed from distilled water in 2h by oxidation with H2O2 60mM and by adsorption on the catalyst. The amount of adsorbed dye was minimized in the presence of 0.1M Na2SO4. The kinetics of the processes followed a pseudo-first-order empirical model, and the catalyst was recovered and re-used. Epinephrine was chosen as a pharmaceutical model susceptible to superoxide attack. About 80% of conversion to adrenochrome was reached in less than 6min, following a pseudo-first-order kinetic model.

Biosynthesis, isolation, and NMR analysis of leukotriene A epoxides: substrate chirality as a determinant of the cis or trans epoxide configuration

Leukotriene (LT)A₄ and closely related allylic epoxides are pivotal intermediates in lipoxygenase (LOX) pathways to bioactive lipid mediators that include the leukotrienes, lipoxins, eoxins, resolvins, and protectins. Although the structure and stereochemistry of the 5-LOX product LTA₄ is established through comparison to synthetic standards, this is the exception, and none of these highly unstable epoxides has been analyzed in detail from enzymatic synthesis. Understanding of the mechanistic basis of the cis or trans epoxide configuration is also limited. To address these issues, we developed methods involving biphasic reaction conditions for the LOX-catalyzed synthesis of LTA epoxides in quantities sufficient for NMR analysis. As proof of concept, human 15-LOX-1 was shown to convert 15S-hydroperoxy-eicosatetraenoic acid (15S-HPETE) to the LTA analog 14S,15S-trans-epoxy-eicosa-5Z,8Z,10E,12E-tetraenoate, confirming the proposed structure of eoxin A₄. Using this methodology we then showed that recombinant Arabidopsis AtLOX1, an arachidonate 5-LOX, converts 5S-HPETE to the trans epoxide LTA₄ and converts 5R-HPETE to the cis epoxide 5-epi-LTA₄, establishing substrate chirality as a determinant of the cis or trans epoxide configuration. The results are reconciled with a mechanism based on a dual role of the LOX nonheme iron in LTA epoxide biosynthesis, providing a rational basis for understanding the stereochemistry of LTA epoxide intermediates in LOX-catalyzed transformations.