Uncovering the reaction mechanism behind CoO as active phase for CO2 hydrogenation

Transforming carbon dioxide into valuable chemicals and fuels, is a promising tool for environmental and industrial purposes. Here, we present catalysts comprising of cobalt (oxide) nanoparticles stabilized on various support oxides for hydrocarbon production from carbon dioxide. We demonstrate that the activity and selectivity can be tuned by selection of the support oxide and cobalt oxidation state. Modulated excitation (ME) diffuse reflectance infrared Fourier transform spectroscopy (DRIFTS) reveals that cobalt oxide catalysts follows the hydrogen-assisted pathway, whereas metallic cobalt catalysts mainly follows the direct dissociation pathway. Contrary to the commonly considered metallic active phase of cobalt-based catalysts, cobalt oxide on titania support is the most active catalyst in this study and produces 11% C2+ hydrocarbons. The C2+ selectivity increases to 39% (yielding 104 mmol h−1 gcat−1 C2+ hydrocarbons) upon co-feeding CO and CO2 at a ratio of 1:2 at 250 °C and 20 bar, thus outperforming the majority of typical cobalt-based catalysts.

Molecular-level insights into the electronic effects in platinum-catalyzed carbon monoxide oxidation

A molecular-level understanding of how the electronic structure of metal center tunes the catalytic behaviors remains a grand challenge in heterogeneous catalysis. Herein, we report an unconventional kinetics strategy for bridging the microscopic metal electronic structure and the macroscopic steady-state rate for CO oxidation over Pt catalysts. X-ray absorption and photoelectron spectroscopy as well as electron paramagnetic resonance investigations unambiguously reveal the tunable Pt electronic structures with well-designed carbon support surface chemistry. Diminishing the electron density of Pt consolidates the CO-assisted O2 dissociation pathway via the O*-O-C*-O intermediate directly observed by isotopic labeling studies and rationalized by density-functional theory calculations. A combined steady-state isotopic transient kinetic and in situ electronic analyses identifies Pt charge as the kinetics indicators by being closely related to the frequency factor, site coverage, and activation energy. Further incorporation of catalyst structural parameters yields a novel model for quantifying the electronic effects and predicting the catalytic performance. These could serve as a benchmark of catalyst design by a comprehensive kinetics study at the molecular level.

Quantitative parameters of bacterial RNA polymerase open-complex formation, stabilization and disruption on a consensus promoter

Transcription initiation is the first step in gene expression, and is therefore strongly regulated in all domains of life. The RNA polymerase (RNAP) first associates with the initiation factor σ to form a holoenzyme, which binds, bends and opens the promoter in a succession of reversible states. These states are critical for transcription regulation, but remain poorly understood. Here, we addressed the mechanism of open complex formation by monitoring its assembly/disassembly kinetics on individual consensus lacUV5 promoters using high – throughput single-molecule magnetic tweezers. We probed the key protein – DNA interactions governing the open-complex formation and dissociation pathway by modulating the dynamics at different concentrations of monovalent salts and varying temperatures. Consistent with ensemble studies, we observed that RPO is a stable, slowly reversible state that is preceded by a kinetically significant open intermediate (RPI), from which the holoenzyme dissociates. A strong anion concentration and type dependence indicates that the RPO stabilization may involve sequence – independent interactions between the DNA and the holoenzyme, driven by a non – Coulombic effect consistent with the non-template DNA strand interacting with σ and the RNAP β subunit. The temperature dependence provides the energy scale of open complex formation and further supports the existence of additional intermediates.

Restructuring highly electron-deficient metal-metal oxides for boosting stability in acidic oxygen evolution reaction

The poor catalyst stability in acidic oxidation evolution reaction (OER) has been a long-time issue. Herein, we introduce electron-deficient metal on semiconducting metal oxides-consisting of Ir (Rh, Au, Ru)-MoO3 embedded by graphitic carbon layers (IMO) using an electrospinning method. We systematically investigate IMO’s structure, electron transfer behaviors, and OER catalytic performance by combining experimental and theoretical studies. Remarkably, IMO with an electron-deficient metal surface (Irx+; x > 4) exhibit a low overpotential of only ~156 mV at 10 mA cm−2 and excellent durability in acidic media due to the high oxidation state of metal on MoO3. Furthermore, the proton dissociation pathway is suggested via surface oxygen serving as proton acceptors. This study suggests high stability with high catalytic performance in these materials by creating electron-deficient surfaces and provides a general, unique strategy for guiding the design of other metal-semiconductor nanocatalysts.

Impact of pyruvic acid photolysis on acetaldehyde and peroxy radical formation in the boreal forest: theoretical calculations and model results

Based on the first measurements of gas-phase pyruvic acid (CH3C(O)C(O)OH) in the boreal forest, we derive effective emission rates of pyruvic acid and compare them with monoterpene emission rates over the diel cycle. Using a data-constrained box model, we determine the impact of pyruvic acid photolysis on the formation of acetaldehyde (CH3CHO) and the peroxy radicals CH3C(O)O2 and HO2 during an autumn campaign in the boreal forest. The results are dependent on the quantum yield (φ) and mechanism of the photodissociation of pyruvic acid and the fate of a likely major product, methylhydroxy carbene (CH3COH). With the box model, we investigate two different scenarios in which we follow the present IUPAC (IUPAC Task Group on Atmospheric Chemical Kinetic Data Evaluation, 2021) recommendations with φ = 0.2 (at 1 bar of air), and the main photolysis products (60 %) are acetaldehyde + CO2 with 35 % C–C bond fission to form HOCO and CH3CO (scenario A). In the second scenario (B), the formation of vibrationally hot CH3COH (and CO2) represents the main dissociation pathway at longer wavelengths (∼ 75 %) with a ∼ 25 % contribution from C–C bond fission to form HOCO and CH3CO (at shorter wavelengths). In scenario 2 we vary φ between 0.2 and 1 and, based on the results of our theoretical calculations, allow the thermalized CH3COH to react with O2 (forming peroxy radicals) and to undergo acid-catalysed isomerization to CH3CHO. When constraining the pyruvic acid to measured mixing ratios and independent of the model scenario, we find that the photolysis of pyruvic acid is the dominant source of CH3CHO with a contribution between ∼ 70 % and 90 % to the total production rate. We find that the photolysis of pyruvic acid is also a major source of the acetylperoxy radical, with contributions varying between ∼ 20 % and 60 % dependent on the choice of φ and the products formed. HO2 production rates are also enhanced, mainly via the formation of CH3O2. The elevated production rates of CH3C(O)O2 and HO2 and concentration of CH3CHO result in significant increases in the modelled mixing ratios of CH3C(O)OOH, CH3OOH, HCHO, and H2O2.

Protein flexibility and dissociation pathway differentiation can explain onset of resistance mutations in kinases

Understanding how point mutations can render a ligand or a drug ineffective against a given biological target is a problem of immense fundamental and practical relevance. Often the efficacy of such resistance mutations can be explained purely on a thermodynamic basis wherein the mutated system displays a reduced binding affinity for the ligand. However, the more perplexing and harder to explain situation is when two protein sequences have the same binding affinity for a drug. In this work, we demonstrate how all-atom molecular dynamics simulations, specifically using recent developments grounded in statistical mechanics and information theory, can provide a detailed mechanistic rationale for such variances. We establish the dissociation mechanism for the popular anti-cancer drug Imatinib (Gleevec) against wild-type and N387S mutant of Abl kinase. We show how this single point mutation triggers a non-local response in the protein's flexibility and eventually leads to pathway differentiation during dissociation. This pathway differentiation explains why Gleevec has a long residence time in the wild-type Abl, but for the mutant, by opening up a backdoor pathway for ligand exit, an order of magnitude shorter residence time is obtained. We thus believe that this work marks an efficient and scalable approach to pinpoint the molecular determinants of resistance mutations in biomolecular receptors of pharmacological relevance that are hard to explain using a simple structural perspective and require mechanistic and kinetic insights.

Photo-initiated ground state chemistry: How important is it in the atmosphere?

Carbonyls are among the most abundant volatile organic compounds in the atmosphere. They are central to atmospheric photochemistry as absorption of near-UV radiation by the C=O chromophore can lead to photolysis. If photolysis does not occur on electronic excited states, non-radiative relaxation to the ground state will form carbonyls with extremely high internal energy. These “hot” molecules can access a range of ground state reactions. Up to nine potential ground state reactions are investigated at the B2GP-PLYP-D3/def2-TZVP level of theory for a dataset of 20 representative carbonyls. Almost all are energetically accessible under tropospheric conditions. Comparison with experiment suggests the most significant ground state dissociation pathways will be concerted triple fragmentation in saturated aldehydes, Norrish type III dissociation to form another carbonyl, and H2-loss involving the formyl H atom in aldehydes. Tautomerisation, leading to more reactive unsaturated species, is also predicted to be energetically accessible and is likely to be important when there is no low-energy ground state dissociation pathway, for example in α,β-unsaturated carbonyls and some ketones. The concerted triple fragmentation and H2-loss pathways have immediate atmospheric implication to global H2 production and tautomerisaton has implication to the atmospheric production of organic acids.

Parallel and Sequential Pathways of Molecular Recognition of a Tandem-Repeat Protein and Its Intrinsically Disordered Binding Partner

The Wnt signalling pathway plays an important role in cell proliferation, differentiation, and fate decisions in embryonic development and the maintenance of adult tissues. The twelve armadillo (ARM) repeat-containing protein β-catenin acts as the signal transducer in this pathway. Here, we investigated the interaction between β-catenin and the intrinsically disordered transcription factor TCF7L2, comprising a very long nanomolar-affinity interface of approximately 4800 Å2 that spans ten of the twelve ARM repeats of β-catenin. First, a fluorescence reporter system for the interaction was engineered and used to determine the kinetic rate constants for the association and dissociation. The association kinetics of TCF7L2 and β-catenin were monophasic and rapid (7.3 ± 0.1 × 107 M−1·s−1), whereas dissociation was biphasic and slow (5.7 ± 0.4 × 10−4 s−1, 15.2 ± 2.8 × 10−4 s−1). This reporter system was then combined with site-directed mutagenesis to investigate the striking variability in the conformation adopted by TCF7L2 in the three different crystal structures of the TCF7L2–β-catenin complex. We found that the mutation had very little effect on the association kinetics, indicating that most interactions form after the rate-limiting barrier for association. Mutations of the N- and C-terminal subdomains of TCF7L2 that adopt relatively fixed conformations in the crystal structures had large effects on the dissociation kinetics, whereas the mutation of the labile sub-domain connecting them had negligible effect. These results point to a two-site avidity mechanism of binding with the linker region forming a “fuzzy” complex involving transient contacts that are not site-specific. Strikingly, the two mutations in the N-terminal subdomain that had the largest effects on the dissociation kinetics showed two additional phases, indicating partial flux through an alternative dissociation pathway that is inaccessible to the wild type. The results presented here provide insights into the kinetics of the molecular recognition of a long intrinsically disordered region with an elongated repeat-protein surface, a process found to involve parallel routes with sequential steps in each.