Closed-shell Species Research Articles

Investigation of the Cyclohexene Oxidation Mechanism Through the Direct Measurement of Organic Peroxy Radicals.

Monoterpenes, the second most abundant biogenic volatile organic compounds globally, are crucial in forming secondary organic aerosols, making their oxidation mechanisms vital for addressing climate change and air pollution. This study utilized cyclohexene as a surrogate to explore first-generation products from its ozonolysis through laboratory experiments and mechanistic modeling. We employed proton transfer reaction mass spectrometry with NH4+ ion sources (NH4+-CIMS) and a custom-built OH calibration source to quantify organic peroxy radicals (RO2) and closed-shell species. Under near-real atmospheric conditions in a Potential Aerosol Mass-Oxidation Flow Reactor, we identified 30 ozonolysis products, expanding previous data sets of low-oxygen compounds. Combined with simulations based on the Generator for Explicit Chemistry and Kinetics of Organics in the Atmosphere and relevant literature, our results revealed that OH dominates over ozone in cyclohexene oxidation at typical atmospheric oxidant levels with H-abstraction contributing 30% of initial RO2 radicals. Highly oxidized molecules primarily arise from RO2 autoxidation initiated by ozone, and at least 15% of ozone oxidation products follow the overlooked nonvinyl hydroperoxides pathway. Gaps remain especially in understanding RO2 cross-reactions, and the structural complexity of monoterpenes further complicates research. As emissions decrease and afforestation increases, understanding these mechanisms becomes increasingly critical.

Monosilicon Derivatives of Phenanthrene and Pyrene as Potential Singlet Fission Materials for High-Performance Solar Cells.

Singlet fission (SF) is a process in which the energy of a singlet-excited molecule is divided into two triplet excitations. This is a special case of an internal conversion that is spin-allowed and extremely fast. Ideally, this process utilizes one photon to produce two electron-hole pairs. In tandem with a layer of singlet fission material, conventional solar cells can achieve improved efficiency by utilizing higher-energy photons. This density functional theory study provides information about additional efficient SF chromophores that were theoretically modeled by functionalizing phenanthrene and pyrene via site-specific monosilicon substitutions. The SF capabilities of the derivatives were evaluated by calculating the SF thermodynamic driving force (ΔESF) and the excited state's molecular planarity. The most promising monosilicon derivatives with SF capabilities are 3-silaphenanthrene and 1-silapyrene for each family, respectively. All phenanthrene and pyrene monosilicon derivatives are strong closed-shell species, because their multiple diradical characteristics are close to zero. Based on these results, 3-silaphenanthrene and 1-silapyrene were selected for electron excitation analysis, which further demonstrated that the monosilicon functionalization of phenanthrene and pyrene led to a transfer from local excitation characters to hybridized local and charge-transfer characters of the excited states, resulting in a significant change from endoergic to exoergic in the SF chromophores.

Borozenes: Benzene-Like Planar Aromatic Boron Clusters.

ConspectusWith three valence electrons and four valence orbitals, boron (2s22p1) is an electron-deficient element, resulting in interesting chemical bonding and structures in both borane molecules and bulk boron materials. The electron deficiency leads to electron sharing and delocalization in borane compounds and bulk boron allotropes, characterized by polyhedral cages, in particular, the ubiquitous B12 icosahedral cage. During the past two decades, the structures and bonding of size-selected boron clusters have been elucidated via combined photoelectron spectroscopy and theoretical investigations. Unlike bulk boron materials, finite boron clusters have been found to possess 2D structures consisting of B3 triangles, dotted with tetragonal, pentagonal, or hexagonal holes. The discovery of the planar B36 cluster with a central hexagonal hole provided the first experimental evidence for the viability of 2D boron nanostructures (borophene), which have been synthesized on inert substrates. The B7-, B8-, and B9- clusters were among the first few boron clusters to be investigated by joint photoelectron spectroscopy and theoretical calculations, and they were all found to possess 2D structures with a central B atom inside a Bn ring. Recently, the B73- (C6v), B82- (D7h), and B9- (D8h) series of closed-shell species were shown to possess similar π bonding akin to that in the C5H5-, C6H6, and C7H7+ series, respectively, and the name "borozene" was coined to highlight their analogy to the classical aromatic hydrocarbon molecules.Among the borozenes, the D7h B82- species is unique for its high stability originating from both its double aromaticity and the fact that the B7 ring has the perfect size to host a central B atom. The B82- borozene has been realized experimentally in a variety of MB8 and M2B8 complexes. In particular, the B82- borozene has been observed to stabilize the rare valence-I oxidation state of lanthanides in LnB8- complexes, as well as a Cu2+ species in Cu2B8-. The B6 ring in B73- is too small to host a B atom, resulting in a slight out-of-plane distortion. Interestingly, the bowl-shaped B7 borozene is perfect for coordination to a metal atom, leading to the observation of a series of highly stable MB7 borozene complexes. On the other hand, the B8 ring is slightly too large to host the central B atom, such that a low-lying and low-symmetry isomer also exists for B9-. Even though most 2D boron clusters are aromatic, the B73-, B82-, and B9- borozenes are special because of their high symmetries and their analogy to the series of C5H5-, C6H6, and C7H7+ prototypical aromatic compounds. This Account discusses recent experimental and theoretical advances on the investigations of various borozene complexes. It is expected that many new borozene compounds can be designed and may be eventually synthesized.

The Semiexperimental Approach at Work: Equilibrium Structure of Radical Species.

The so-called semiexperimental (SE) approach is a powerful technique for obtaining highly accurate equilibrium structures for isolated systems. This Featured Article describes its extension to open-shell species, thus providing the first systematic investigation on radical equilibrium geometries to be used for benchmarking purposes. The small yet significant database obtained demonstrates that there is no reduction in accuracy when moving from closed-shell species to radicals. We also provide an extension of the applicability of the SE approach to medium-/large-sized radicals by exploiting the so-called "Lego-brick" approach, which is based on the assumption that a molecular system can be seen as formed by smaller fragments for which the SE equilibrium structure is available. In this Featured Article we show that this model can be successfully applied also to open-shell species.

Building a New Platform for Significantly Improving Performance of Hartree-Fock and CCSD(T) Correlation Energy Based on Two-Point Complete Basis Set Extrapolation Schemes.

The leading cause of high expense in gold standard coupled cluster theory is that calculations of electronic energies converge exceedingly slowly with an increased basis set size. Extrapolation principally allows for achieving higher-quality outcomes at reduced costs. Numerous extrapolation formulas have been developed, with attempts to predict energies up to the complete basis set limit. Unfortunately, since the intricate shape of the function hinges on the molecular properties with the highest angular momentum of the basis set, the accuracy of the extrapolated energies highly depends on the fitted empirical parameters, which rely on the quality of the data sets for fitting. In this work, to overcome the extrapolation deficiency caused by the very limited data sets and smaller basis sets in the early stages, we constructed a new benchmark platform that includes a broader data set of 183 species (containing open-shell, closed-shell, ionic, and neutral species) and a larger basis set up to aug-cc-pV6Z. The newly optimized parameters can significantly improve the energy-predictive abilities of ten published formulas. Notably, all ten formulas perform quite similarly under the new platform with the reoptimized parameters. Finally, we built an online calculator for researchers to use for these extrapolation schemes. Our work would reignite the interest and applications of the underestimated formulas.

Electrophotocatalytic hydrogenation of imines and reductive functionalization of aryl halides.

The open-shell catalytically active species, like radical cations or radical anions, generated by one-electron transfer of precatalysts are widely used in energy-consuming redox reactions, but their excited-state lifetimes are usually short. Here, a closed-shell thioxanthone-hydrogen anion species (3), which can be photochemically converted to a potent and long-lived reductant, is generated under electrochemical conditions, enabling the electrophotocatalytic hydrogenation. Notably, TfOH can regulate the redox potential of the active species in this system. In the presence of TfOH, precatalyst (1) reduction can occur at low potential, so that competitive H2 evolution can be inhibited, thus effectively promoting the hydrogenation of imines. In the absence of TfOH, the reducing ability of the system can reach a potency even comparable to that of Na0 or Li0, thereby allowing the hydrogenation, borylation, stannylation and (hetero)arylation of aryl halides to construct C-H, C-B, C-Sn, and C-C bonds.

High-Resolution Spectroscopic Investigation of the CH2CHO Radical in the Sub-Millimeter Region.

In this work, the pure rotational spectrum of the vinoxy radical (CH2CHO) has been studied at millimeter and sub-millimeter wavelengths (110-860 GHz). CH2CHO was produced by H-abstraction from acetaldehyde (CH3CHO) using atomic fluorine in a double-pass absorption cell at room temperature. A Zeeman-modulation spectrometer, in which an external magnetic field generated inside the absorption cell is amplitude-modulated, was used to record the pure rotational transitions of the radical. The recorded spectra are devoid of signals from closed-shell species, allowing for relatively fast acquisitions over wide spectral windows. Transitions involving values of the rotational quantum numbers N″ and Ka″ up to 41 and 18, respectively, were measured and combined with all available high-resolution literature data (both pure rotation and ground-state combination differences from ro-vibration) to greatly improve the modeling of the CH2CHO spectrum. The combined experimental line list is fit using a semirigid rotor Hamiltonian, and the results are compared to quantum chemical calculations. This laboratory study provides the spectroscopic information needed to search for CH2CHO in various interstellar environments, from cold (e.g., typically 10 K for dense molecular clouds) to warm (e.g., ∼200 K for hot corinos) objects.

Formation of Interstellar Complex Organic Molecules on Water-rich Ices Triggered by Atomic Carbon Freezing

The reactivity of interstellar carbon atoms (C) on water-dominated ices is one of the possible ways to form interstellar complex organic molecules (iCOMs). In this work, we report a quantum chemical study of the coupling reaction of C (3P) with an icy water molecule, alongside possible subsequent reactions with the most abundant closed-shell frozen species (NH3, CO, CO2, and H2), atoms (H, N, and O), and molecular radicals (OH, NH2, and CH3). We found that C reacts spontaneously with the water molecule, resulting in the formation of 3C–OH2, a highly reactive species due to its triplet electronic state. While reactions with the closed-shell species do not show any reactivity, reactions with N and O form CN and CO, respectively, the latter ending up in methanol upon subsequent hydrogenation. The reactions with OH, CH3, and NH2 form methanediol, ethanol, and methanimine, respectively, upon subsequent hydrogenation. We also propose an explanation for methane formation observed in experiments through additions of H to C in the presence of ices. The astrochemical implications of this work are: (i) atomic C on water ice is locked into 3C–OH2, making difficult the reactivity of bare C atoms on icy surfaces, contrary to what is assumed in current astrochemical models; and (ii) the extraordinary reactivity of 3C–OH2 provides new routes toward the formation of iCOMs in a nonenergetic way, in particular ethanol, the mother of other iCOMs once it is in the gas phase.

Benchmark Study of the Electronic States of the LiRb Molecule: Ab Initio Calculations with the Fock Space Coupled Cluster Approach.

Accurate potential energy curves (PECs) are determined for the twenty-two electronic states of LiRb. In contrast to previous studies, the applied approach relies on the first principle calculations involving correlation among all electrons. The current methodology is founded on the multireference coupled cluster (CC) scheme constructed within the Fock space (FS) formalism, specifically for the (2,0) sector. The FS methodology is established within the framework of the intermediate Hamiltonian formalism and offers an intruder-free, efficient computational scheme. This method has a distinctive feature that, when applied to the doubly ionized system, provides the characteristics of the neutral case. This proves especially beneficial when investigating PECs in situations where a closed-shell molecule dissociates into open-shell fragments, yet its double positive ion forms closed-shell species. In every instance, we successfully computed continuous PECs spanning the entire range of interatomic distances, from the equilibrium to the dissociation limit. Moreover, the spectroscopic characteristic of various electronic states is presented, including relativistic effects. Relativistic corrections included at the third-order Douglas-Kroll level have a non-negligible effect on the accuracy of the determined spectroscopic constants.

Synthesis of urea on the surface of interstellar water ice clusters. A quantum chemical study

Urea is a prebiotic molecule that has been detected in few sources of the interstellar medium (ISM) and in Murchison meteorite. Being stable against ultraviolet radiation and high-energy electron bombardment, urea is expected to be present in interstellar ices. Theoretical and experimental studies suggest that isocyanic acid (HNCO) and formamide (NH2CHO) are possible precursors of urea. However, uncertainties still exist regarding its formation routes. Previous computational works characterised urea formation in the gas phase or in presence of few water molecules by reaction of formamide with nitrogen-bearing species. In this work, we investigated the reaction of HNCO + NH3 on an 18 water molecules ice cluster model mimicking interstellar ice mantles by means of quantum chemical computations. We characterised different mechanisms involving both closed-shell and open-shell species at B3LYP-D3(BJ)/ma-def2-TZVP level of theory, in which the radical–radical H2NCO + NH2 coupling has been found to be the most favourable one due to being almost barrierless. In this path, the presence of the icy surfaces is crucial for acting as reactant concentrators/suppliers, as well as third bodies able to dissipate the energy liberated during the urea formation.

Quantum chemical exploration of the binding motifs and binding energies of neutral molecules, radicals and ions with small water clusters: characterisation and astrochemical implications

ABSTRACT Accurate binding energies of molecules to water clusters are relevant for understanding intermolecular interactions and various chemical applications. They enter models of interstellar chemical processes, as binding to icy grains influences surface reactions and thus affects calculated gas-phase abundances. Unfortunately, many astrochemical molecules (especially radicals and ions) are incompletely characterised in these models. To address this, we report computational searches for optimal structures and benchmark binding and condensation energies for sets of neutral, radical, cationic, and anionic molecules of astrochemical relevance with clusters of N = 1 − 4 water molecules. These calculations utilised reliable density functionals for geometry optimisation, and coupled cluster (CCSD(T)) single point calculations with large basis sets. Four energetic binding motifs (weak, intermediate, strong or covalently bonded) were observed depending on the chemical nature of the guest molecule. Neutral closed and open-shell molecules with strong dipoles and a greater potential for hydrogen bonding are more tightly bound to water clusters compared to non-polar ones. For closed-shell cationic and anionic species, barrier-less reactions with water clusters occur, which reveals radical-free routes to molecular processing in the gas phase and on amorphous ice surfaces.

Dimerisierung eines reaktiven Azaacen Diradikals: Synthese eines kovalenten Azaacen‐Käfigs

AbstractZwei Serien regioisomerer dicyanomethylen‐substituierter Dithienodiazatetracenen mit formalen para‐ oder ortho‐Chinodimethan‐Untereinheiten wurden synthetisiert und charakterisiert. Während die para‐Isomere (p‐n, Diradikalindex y0=0.01) stabil und isolierbar waren, dimerisierte das ortho‐Isomer (y0=0.98) zu einem kovalenten Azaacen‐Käfig. Es wurden vier lange σ‐CC‐Bindungen gebildet und dabei die ehemaligen Triisopropyl‐silyl(TIPS)‐Ethinyl‐Gruppen in Kumulen‐Einheiten umgewandelt. Der Azaacen‐Käfig (o‐1)2 wurde durch Einkristallröntgenstrukturanalyse charakterisiert. Weitere temperaturabhängige Experimente wie Infrarot‐ (IR), Elektronenspinresonanz‐ (ESR, Festkörper), Kernspinresonanz‐ (engl. nuclear magnetic resonance, NMR) und Absorptions‐ (engl. ultraviolet‐visible, UV/Vis) Spektroskopie (Lösung) wurden durchgeführt, welche auf die Rückbildung des intermediären Diradikals o‐1 hinweisen.

Collisional excitation of methyl (iso)cyanide by He atoms: rate coefficients and isomerism effects

ABSTRACT Among all closed-shell species observed in molecular clouds, molecules with C3v symmetry play a crucial role, as their rotational spectroscopy allows them to behave as a gas thermometer. In the interstellar medium, methyl cyanide (CH3CN) is the second most abundant of those (after ammonia, NH3). Its isomer, methyl isocyanide (CH3NC), is less abundant but has been detected in many astrophysical sources. In order to assess their absolute and relative abundances, it is essential to understand their collisional excitation properties. This paper reports the calculation of rate coefficients for rotational excitation of CH3CN and CH3NC molecules with He atoms, from low (5 K) to moderate (100 K) temperatures. We include the first 74 and 66 rotational states of both para and ortho symmetries of CH3CN and CH3NC, respectively. A propensity for Δj = 2 transitions is observed in the case of CH3CN-He collisions, whereas in the case of CH3NC-He a propensity for Δj = 1 is observed for transitions involving low values of j and at low temperatures, a propensity for Δj = 2 is observed for higher values of j and at high temperatures. A comparison of rate coefficients shows differences up to a factor of 3, depending on temperature and on the ortho/para symmetries for dominant transitions. This confirms the importance of having specific collisional data for each isomer. We also examined the effect of these new rates on the CH3CN and CH3NC excitation in molecular clouds by performing radiative transfer calculations of the excitation and brightness temperatures for several detected lines.

The Identity and Chemistry of C7H7 Radicals Observed during Soot Formation

We used aerosol mass spectrometry coupled with tunable synchrotron photoionization to measure radical and closed-shell species associated with particle formation in premixed flames and during pyrolysis of butane, ethylene, and methane. We analyzed photoionization (PI) spectra for the C7H7 radical to identify the isomers present during particle formation. For the combustion and pyrolysis of all three fuels, the PI spectra can be fit reasonably well with contributions from four radical isomers: benzyl, tropyl, vinylcyclopentadienyl, and o-tolyl. Although there are significant experimental uncertainties in the isomeric speciation of C7H7, the results clearly demonstrate that the isomeric composition of C7H7 strongly depends on the combustion or pyrolysis conditions and the fuel or precursors. Fits to the PI spectra using reference curves for these isomers suggest that all of these isomers may contribute to m/z 91 in butane and methane flames, but only benzyl and vinylcyclopentadienyl contribute to the C7H7 isomer signal in the ethylene flame. Only tropyl and benzyl appear to play a role during pyrolytic particle formation from ethylene, and only tropyl, vinylcyclopentadienyl, and o-tolyl appear to participate during particle formation from butane pyrolysis. There also seems to be a contribution from an isomer with an ionization energy below 7.5 eV for the flames but not for the pyrolysis conditions. Kinetic models with updated and new reactions and rate coefficients for the C7H7 reaction network predict benzyl, tropyl, vinylcyclopentadienyl, and o-tolyl to be the primary C7H7 isomers and predict negligible contributions from other C7H7 isomers. These updated models provide better agreement with the measurements than the original versions of the models but, nonetheless, underpredict the relative concentrations of tropyl, vinylcyclopentadienyl, and o-tolyl in both flames and pyrolysis and overpredict benzyl in pyrolysis. Our results suggest that there are additional important formation pathways for the vinylcyclopentadienyl, tropyl, and o-tolyl radicals and/or loss pathways for the benzyl radical that are currently unaccounted for in the present models.

Closed-shell and open-shell dual nature of singlet diradical compounds

Abstract Unlike triplet diradicals, singlet diradicals can vary in diradical character from 0 % to 100 % depending on linker units that allow two formally unpaired electrons to couple covalently. In principle, the electronic structure of singlet diradicals can be described as a quantum superposition of closed-shell and open-shell structures. This means that, depending on the external environment, singlet diradicals can behave as either closed-shell or open-shell species. This paper summarizes our progress in understanding the electronic structure of π-conjugated singlet diradical molecules in terms of closed-shell and open-shell dual nature. We first discuss the coexistence of intra- and intermolecular covalent bonding interactions in the π-dimer of a singlet diradical molecule. The intra- and intermolecular coupling of two formally unpaired electrons are related to closed-shell and open-shell nature of singlet diradical, respectively. Then we demonstrate the coexistence of the covalent bonding interactions in the one-dimensional stack of singlet diradical molecules having different diradical character. The relative strength of the interactions is varied with the magnitude of singlet diradical index y 0. Finally, we show the dual reactivity of a singlet diradical molecule, which undergoes rapid [4 + 2] and [4 + 4] cycloaddition reactions in the dark at room temperature. Closed-shell and open-shell nature endow the singlet diradical molecule with the reaction manner as diene and diradical species, respectively.

Experimental and theoretical near-edge x-ray-absorption fine-structure studies of NO+

Experimental near-edge x-ray-absorption fine-structure (NEXAFS) spectra of the nitrosonium ${\mathrm{NO}}^{+}$ ion are presented and theoretically analyzed. While neutral NO has an open shell, the cation is a closed-shell species, which for NEXAFS leads to the simplicity of a closed-shell spectrum. Compared to neutral NO, the electrons in the cation experience a stronger Coulomb potential, which introduces a shift of the ionization potential towards higher energies, a depletion of intensity in a large interval above the ${\ensuremath{\pi}}^{*}$ resonance, and a shift of the ${\ensuremath{\sigma}}^{*}$ resonance from the continuum to below the ionization threshold. NEXAFS features at the nitrogen and oxygen $K$ edges of ${\mathrm{NO}}^{+}$ are compared, as well as NEXAFS features at the nitrogen edges of the isoelectronic closed-shell species ${\mathrm{NO}}^{+}, {\mathrm{N}}_{2}$, and ${\mathrm{N}}_{2}{\mathrm{H}}^{+}$.

Acylperoxy Radicals as Key Intermediates in the Formation of Dimeric Compounds in α-Pinene Secondary Organic Aerosol.

High molecular weight dimeric compounds constitute a significant fraction of secondary organic aerosol (SOA) and have profound impacts on the properties and lifecycle of particles in the atmosphere. Although different formation mechanisms involving reactive intermediates and/or closed-shell monomeric species have been proposed for the particle-phase dimers, their relative importance remains in debate. Here, we report unambiguous experimental evidence of the important role of acyl organic peroxy radicals (RO2) and a small but non-negligible contribution from stabilized Criegee intermediates (SCIs) in the formation of particle-phase dimers during ozonolysis of α-pinene, one of the most important precursors for biogenic SOA. Specifically, we find that acyl RO2-involved reactions explain 50-80% of total oxygenated dimer signals (C15-C20, O/C ≥ 0.4) and 20-30% of the total less oxygenated (O/C < 0.4) dimer signals. In particular, they contribute to 70% of C15-C19 dimer ester formation, likely mainly via the decarboxylation of diacyl peroxides arising from acyl RO2 cross-reactions. In comparison, SCIs play a minor role in the formation of C15-C19 dimer esters but react noticeably with the most abundant C9 and C10 carboxylic acids and/or carbonyl products to form C19 and C20 dimeric peroxides, which are prone to particle-phase transformation to form more stable dimers without the peroxide functionality. This work provides a clearer view of the formation pathways of particle-phase dimers from α-pinene oxidation and would help reduce the uncertainties in future atmospheric modeling of the budget, properties, and health and climate impacts of SOA.

S-Shaped Fused Azacorannulene Dimer: Structural and Redox Properties

S-Shaped Fused Azacorannulene Dimer: Structural and Redox Properties

BenzAI: A Program to Design Benzenoids with Defined Properties Using Constraint Programming.

The BenzAI program can automatically generate benzenoids with defined structural constraints, like the number of hexagons, the number of carbon and/or hydrogen atoms, the existence of symmetries, the number of Kekulé structures, their diameter, or more elaborate criteria like their irregularity. BenzAI allows both automatic generation and manual building of benzenoids including or excluding defined patterns. For all benzenoids with less than 10 rings, it can extract IR spectra from a database that we generated. It computes local aromaticity for closed-shell and monoradical species using circuit-based algorithms. We present practical examples of what can be done with BenzAI for a diversity of cases.

Lanthanide bisphthalocyanine single-molecule magnets: A DFT survey of their geometries and electronic properties from lanthanum to lutetium

By using density functional theory (PBE functional and Grimme's dispersion correction) we studied how a stepwise addition of 4f electrons influences the geometries and electronic properties of lanthanide bisphthalocyanine (LnPc2) single-molecule magnets (SMMs). To handle the convergence problems, which are common for lanthanide compounds, we tested DN, DND and DNP basis sets. The calculations for all fifteen bisphthalocyanines were possible to complete only with DN basis set, for which geometries optimized are in a reasonable agreement with the experimental X-ray diffraction data; on the other hand, the use of DND and DNP produces convergence problems and unrealistic geometries. Selected electronic parameters including HOMO, LUMO, HOMO-LUMO gap energies, charge and spin of central metal atom calculated with DN basis set were analyzed. In the case of closed-shell ions La3+ and Lu3+ no spin transfer to phthalocyanine ligands is observed. In most complexes (Ce, Pr, Tb–Yb) unpaired electrons are transferred to phthalocyanine ligands, whereas for Nd–Eu, the spin of Ln atom increases. The most unexpected observation is a loss of the sole unpaired f-electron of cerium, which means that its oxidation state is Ce4+ and not Ce3+: this converts CePc2 into a closed-shell species.