Unlocking the C-centered ring-opening of phosphiranium ions for a straightforward entry to functionalized phosphines

Phosphorus chemistry occupies a pivotal position in contemporary organic chemistry but significant synthetic challenges still endure. In this report, a class of electrophilic phosphiranium salts, bearing fluorinated benzyl quaternizing groups, is introduced for the direct synthesis of diversely β-functionalized phosphines. We show that, in comparison with regular quaternary phosphiranium salts, these species display the sought balance of excellent stability and high electrophilic reactivity that allow the unlocking of the C-centered ring-opening reactions with different classes of weak nitrogen-, sulfur- and oxygen protic nucleophiles.

Dative Bonding Activation Enables Precise Functionalization of the Remote B-H Bond of nido-Carborane Clusters

The innovation of synthetic strategies for selective B-H functionalization is a pivotal objective in the realm of boron cluster chemistry. However, the precise, efficient, and rapid functionalization of a B-H bond of carboranes that is distant from the existing functional groups remains intractable owing to the limited approaches for site-selective control from the established methods. Herein, we report a dative bonding activation strategy for the selective functionalization of a nonclassical remote B-H site of nido-carboranes. By leveraging the electronic effects brought by the exopolyhedral B(9)-dative bond, a cross-nucleophile B-H/S-H coupling protocol of the distal B(5)-H bond has been established. The dative bond not only amplifies the subtle reactivity difference among B-H bonds but also significantly changes the reactive sites, further infusing nido-carboranes with additional structural diversity. This reaction paradigm features mild conditions, rapid conversion, efficient production, broad scope, and excellent group tolerance, thus enabling the applicability to an array of complex bioactive molecules. The efficient and scalable reaction platform is amenable to the modular construction of photofunctional molecules and boron delivery agents for boron neutron capture therapy. This work not only provides an unprecedented solution for the selective diversification of distal B-H sites in nido-carboranes but also holds the potential for expediting the discovery of novel carborane-based functional molecules.

A comprehensive electron wavefunction analysis toolbox for chemists, Multiwfn

Analysis of electron wavefunction is a key component of quantum chemistry investigations and is indispensable for the practical research of many chemical problems. After more than ten years of active development, the wavefunction analysis program Multiwfn has accumulated very rich functions, and its application scope has covered numerous aspects of theoretical chemical research, including charge distribution, chemical bond, electron localization and delocalization, aromaticity, intramolecular and intermolecular interactions, electronic excitation, and response property. This article systematically introduces the features and functions of the latest version of Multiwfn and provides many representative examples. Through this article, readers will be able to fully understand the characteristics and recognize the unique value of Multiwfn. The source code and precompiled executable files of Multiwfn, as well as the manual containing a detailed introduction to theoretical backgrounds and very rich tutorials, can all be downloaded for free from the Multiwfn website (http://sobereva.com/multiwfn).

CuGBasis: High-performance CUDA/Python library for efficient computation of quantum chemistry density-based descriptors for larger systems

CuGBasis is a free and open-source CUDA®/Python library for efficient computation of scalar, vector, and matrix quantities crucial for the post-processing of electronic structure calculations. CuGBasis integrates high-performance Graphical Processing Unit (GPU) computing with the ease and flexibility of Python programming, making it compatible with a vast ecosystem of libraries. We showcase its utility as a Python library and demonstrate its seamless interoperability with existing Python software to gain chemical insight from quantum chemistry calculations. Leveraging GPU-accelerated code, cuGBasis exhibits remarkable performance, making it highly applicable to larger systems or large databases. Our benchmarks reveal a 100-fold performance gain compared to alternative software packages, including serial/multi-threaded Central Processing Unit and GPU implementations. This paper outlines various features and computational strategies that lead to cuGBasis's enhanced performance, guiding developers of GPU-accelerated code.

Direct Defluorination and Amination of Polytetrafluoroethylene and Other Fluoropolymers by Lithium Alkylamides

Polytetrafluoroethylene (PTFE) and, by extension, fluoropolymers are ubiquitous in science, life, and the environment as perfluoroalkyl pollutants (PFAS). In all cases, it is difficult to transform these materials due to their chemical inertness. Herein, we report a direct amination process of PTFE and some fluoropolymers such as polyvinylidene fluoride (PVDF) and Nafion by lithium alkylamide salts. Synthesizing these reactants extemporaneously between lithium metal and an aliphatic primary di- or triamine that also serves as a solvent leads to the rapid nucleophilic substitution of fluoride by an alkylamide moiety when in contact with the fluoropolymer. Moreover, lithium alkylamides dissolved in suitable solvents other than amines can react with fluoropolymers. This highly efficient one-pot process opens the way for further surface or bulk modification if needed, providing an easy, inexpensive, and fast experiment protocol on large scales.

Finding the Ajoene Sweet-Spot: Structure-Activity Relations that Govern its Blood Stability and Cancer Cytotoxicity

Ajoene is an organosulfur compound found in crushed garlic that exerts its anti-cancer activity by S-thiolating cysteine residues on proteins. Its development is hampered due to limited bioavailability, so in this study, we synthesised analogues of ajoene to probe the significance of the ajoene vinyl disulfide/sulfoxide core with respect to cytotoxicity and blood stability. Polar side groups were also incorporated to improve aqueous solubility. It was found that derivatives containing a vinyl disulfide functional group (4-7, as in ajoene), were more cytotoxic compared to analogues in which the double bond was removed, although the latter showed superior blood stability. It was also found that the allyl-S sulfur of the disulfide was more electrophilic to S-thiolysis based on the global electrophilicity index (ω) and the condensed electrophilic Fukui functionf k + ${{ f}_{\rm{k}}^{\rm{ + }} }$ . S-Thiolysis was found to be exergonic for the vinyl disulfides based on entropy and enthalpy computations with a deprotonated thiolate. Derivatisation to the dihydro (10, 12) and deoxydihydroajoenes (9, 11) produced analogues that were slightly less potent but with greatly improved blood stability. Taken together, the deoxydihydroajoenes present themselves as good candidates for further therapeutic development.

A confined expansion pore-making strategy to transform Zn-MOF to porous carbon nanofiber for water treatment: Insight into formation and degradation mechanism

Electrospinning MOFs nanoparticles derived porous carbon nanofibers with rational structure and design are recently as environmentally friendly and highly efficient catalytic materials for wastewater treatment. However, most of the pore-making strategies are based on precursors structural shrinkage during pyrolysis, which is a challenge to create abundant large pores and open channels. Here, a confined expansion pore-making strategy with active MOF is introduced, where energetic Zn-MOF (Zn2+/triazole) and ZIF-67 (Co2+/dimethylimidazole) are utilized as pore forming additive and precursor of active sites, respectively. The high nitrogen content gives triazole the ability to puff up and realizes N-doped during pyrolysis. Moreover, degradation mechanisms and pathways of pollutants were measured by 3D EEM, LC-MS, quenching experiments, and Fukui function. This pore-making strategy via energetic MOF local contraction and expansion provides a novel method to prepare diversiform function porous carbon materials for environmental remediation.

Hydroxylamine enhanced the degradation of diclofenac in Cu(II)/peracetic acid system: Formation and contributions of CH3C(O)O•, CH3C(O)OO•, Cu(III) and •OH

The slow reduction of Cu(II) into Cu(I) through peracetic acid (PAA) heavily limited the widespread application of Cu(II)/PAA system. Herein, hydroxylamine (HA) was proposed to boost the oxidative capacity of Cu(II)/PAA system by facilitating the redox cycle of Cu(I)/Cu(II). HA/Cu(II)/PAA system was quite rapid in the removal of diclofenac within a broad pH range of 4.5-9.5, with a 10-fold increase in the removal rate of diclofenac compared with the Cu(II)/PAA system at an optimal initial pH of 8.5. Results of UV-Vis spectra, electron paramagnetic resonance, and alcohol quenching experiments demonstrated that CH3C(O)O•, CH3C(O)OO•, Cu(III), and •OH were involved in HA/Cu(II)/PAA system, while CH3C(O)OO• was verified as the predominant reactive species of diclofenac elimination. Different from previously reported Cu-catalyzed PAA processes, CH3C(O)OO• mainly generated from the reaction of PAA with Cu(III) rather than CH3C(O)O• and •OH. Four possible elimination pathways for diclofenac were proposed, and the acute toxicity of treated diclofenac solution with HA/Cu(II)/PAA system significantly decreased. Moreover, HA/Cu(II)/PAA system possessed a strong anti-interference ability towards the commonly existent water matrix. This research proposed an effective strategy to boost the oxidative capacity of Cu(II)/PAA system and might promote its potential application, especially in copper-contained wastewater.

Connection between nuclear and electronic Fukui functions beyond frontier molecular orbitals

Based on the relationship between average local ionization energy Ī(r) and average local electron affinity Ā(r) with the electronic Fukui functions, i.e., f-(r) and f+(r), respectively, in this paper, we establish a connection between nuclear and electronic Fukui functions beyond frontier molecular orbitals. As a consequence of this connection, we obtain expressions of average nuclear Fukui functions interpreted as a variation of average nucleophilicity or electrophilicity (weighted by the electronic orbital Fukui functions) with respect to nuclear displacements, which goes beyond the highest occupied molecular orbital/or lowest unoccupied molecular orbital consideration. Furthermore, from this connection and considering the frontier molecular orbital approximation, we derive expressions of nuclear Fukui functions in terms of the atom-condensed electronic Fukui functions, which imply a locality in the chemical reactivity and could be used to study the variation of local nucleophilicity or electrophilicity with respect to nuclear displacements. Finally, this new way to interpret the nuclear Fukui function could be useful in the future to study the chemical reactivity related to molecular vibrations, internal rotations, bond dissociation, chemical reaction along the model of reaction coordinate, and so on.

Coordination-Promoted Bio-Catechol Electro-Reforming toward Sustainable Polymer Production

Sustainable polymer production is essential for a carbon-neutral society. cis,cis-Muconic acid is attracting growing interest as a biomass-derived platform molecule with direct access to adipic acid and terephthalic acid, prominent monomers of commercial polymers. Here, a sustainable route of electro-reforming biorenewable catechol to cis,cis-muconic acid with concurrent H2 production has been proposed. By using a CuO foam electrode, a high cis,cis-muconate yield of 90% and a high faradaic efficiency of 87% can be achieved under ambient conditions without external oxidant. Zn2+ coordination with the catechol is central to the yield and selectivity. In a combinatory analysis via steady-state electrochemical kinetics, in situ spectroscopy, and theoretical calculation, we revealed that the reaction ensemble of catechol electrooxidation involves three major processes of polymerization, ring cleavage, and depolymerization, in which Zn2+ coordination is highly effective in delaying polymerization and promoting ring cleavage toward cis,cis-muconate. The catecholate coordinated to the Zn2+ cations reallocated its electron density with partial structural deformation to accelerate the electron transfer and facilitate the OH- nucleophilic attack. A practical two-electrode system was eventually demonstrated to efficiently and stably electro-reform catechol into isolable cis,cis-muconic acid and hydrogen, providing solutions for polymer sustainability via utilizing alternative biomass resources and electrified processes.

Comparative Study of the Removal Efficiency of Nalidixic Acid by Poly[(4-vinylbenzyl)trimethylammonium Chloride] and N-Alkylated Chitosan through the Ultrafiltration Technique and Its Approximation through Theoretical Calculations

Emerging antibiotic contaminants in water is a global problem because bacterial strains resistant to these antibiotics arise, risking human health. This study describes the use of poly[(4-vinylbenzyl) trimethylammonium chloride] and N-alkylated chitosan, two cationic polymers with different natures and structures to remove nalidixic acid. Both contain ammonium salt as a functional group. One of them is a synthetic polymer, and the other is a modified artificial polymer. The removal of the antibiotic was investigated under various experimental conditions (pH, ionic strength, and antibiotic concentration) using the technique of liquid-phase polymer-based retention (LPR). In addition, a stochastic algorithm provided by Fukui's functions is used. It was shown that alkylated N-chitosan presents 65.0% removal at pH 7, while poly[(4-vinylbenzyl)trimethylammonium chloride] removes 75.0% at pH 9. The interaction mechanisms that predominate the removal processes are electrostatic interactions, π-π interactions, and hydrogen bonding. The polymers reached maximum retention capacities of 1605 mg g-1 for poly[(4-vinylbenzyl) trimethylammonium chloride] and 561 mg g-1 of antibiotic per gram for alkylated poly(N-chitosan). In conclusion, the presence of aromatic groups improves the capacity and polymer-antibiotic interactions.

Photo-transformation of acetaminophen sensitized by fluoroquinolones in the presence of bromide

Fluoroquinolones (FQs) are a class of antibiotics with emerging concern. This study investigated the photochemical properties of two representative FQs, i.e., norfloxacin (NORF) and ofloxacin (OFLO). Results showed that both FQs could sensitize the photo-transformation of acetaminophen under UV-A irradiation, during which excited triplet state (³FQ*) was the main active species. In the presence of 3 mM Br^‾, the photolysis rate of acetaminophen increased by 56.3% and 113.5% in the solutions with 10 μM NORF and OFLO, respectively. Such an effect was ascribed to the generation of reactive bromine species (RBS), which was verified by 3,5-dimethyl-1H-pyrazole (DMPZ) probing approach. ³FQ* reacts with acetaminophen through one-electron transfer, producing radical intermediates which then couple to each other. Presence of Br^‾ did not lead to the formation of brominated products but the same coupling products, which suggests that radical bromine species, rather than free bromine, were responsible for the accelerated acetaminophen transformation. According to the identified reaction products and assisted with the theoretical computation, the transformation pathways of acetaminophen under UV-A irradiation were proposed. The results reported herein suggest that sunlight-driven reactions of FQs and Br^‾ may influence the transformation of coexisting pollutants in surface water environments.

Synthesis and Derivatization of an Isomerized Bithiophene Imide (iBTI) Acceptor with a Controllably Twisted Backbone

A heptagonal isomerized bithiophene imide (iBTI) acceptor has been effectively synthesized on a gram scale. Its series of β-, α',β-, α,α'-, α,α',β-, and α,α',β,β'-substituted derivatives can be obtained by controlling brominated sites. Single-crystal analyses indicate that the torsion angle of the imide backbone depends on the number and rigidity of β-substituted groups. Furthermore, the helical chirality of tetrasubstituted and [7]helicene-like derivatives based on iBTI shows great promise for the construction of chiral semiconductor materials.

Visible-light-induced selective defluoroalkylations of polyfluoroarenes with alcohols

To provide α-polyfluoroarylalcohols, a novel protocol for the selective defluoroalkylation of polyfluoroarenes with easily accessible alcohols was reported via the cooperation of photoredox and hydrogen atom transfer (HAT) strategies with the assistance of Lewis acids under visible light irradiation. The protocol featured broad scope, excellent regioselectivity for both C-H and C-F bond cleavages, and mild conditions. Mechanistic studies suggested that the reaction occurred through Lewis acid-promoted HAT to provide an alkyl radical and sequential addition to polyfluoroarenes. Impressively, the regioselectivity for C-F cleavage was verified with the Fukui function. The feasibility and application of this protocol on fluoroarene synthesis were well illustrated by gram-scale synthesis under both batch and flow conditions, late-stage decoration of bioactive compounds, and further transformations of the fluoroarylalcohols.

Enzyme inhibition, molecular docking, and density functional theory studies of new thiosemicarbazones incorporating the 4-hydroxy-3,5-dimethoxy benzaldehyde motif

New Schiff base-bearing thiosemicarbazones (1-13) were obtained from 4-hydroxy-3,5-dimethoxy benzaldehyde and various isocyanates. The structures of the synthesized molecules were elucidated in detail. Density functional theory calculations were also performed to determine the spectroscopic properties of the compounds. Moreover, the enzyme inhibition activities of these compounds were investigated. They showed highly potent inhibition effects on acetylcholinesterase (AChE) and human carbonic anhydrases (hCAs) (K_I values are in the range of 51.11 ± 6.01 to 278.10 ± 40.55 nM, 60.32 ± 9.78 to 300.00 ± 77.41 nM, and 64.21 ± 9.99 to 307.70 ± 61.35 nM for AChE, hCA I, and hCA II, respectively). In addition, molecular docking studies were performed, confirmed by binding affinities studies of the most potent derivatives.

Theoretical Exploration of Peculiar Sandwich-Type Clusters Formed by the Coordination of E92- (E = Si, Ge, Sn) Zintl Clusters: Structural Properties, Active Sites, and Hydrogen Storage

A peculiar heterogeneous metal sandwich fragment {(Ge₉)₂[η⁶-Ge(PdPPh₃)₃]}^4- anion cluster was synthesized for the first time by Xu et al. (Xu, H. L.; Tkachenko, N. V.; Wang, Z. C.; Chen, W. X.; Qiao, L.; Munoz-Castro, A.; Boldyrev, A. I.; Sun, Z. M. Nat. Commun.2020, 11, 5286). In this work, novel analogous sandwich compounds ({(E₉)₂[η⁶-E(PdPH₃)₃]}^4- (E = Si (1), Ge (2), Sn (3)) were studied using quantum chemical calculations and wave function analysis to determine the geometry, bonding nature, aromaticity, active sites, and hydrogen storage. Structural analysis revealed that the clusters were compounds formed by the coordination of two E₉^2- (E = Si, Ge, Sn) Zintl clusters with a central E@Pd₃ (E = Si, Ge, Sn) interlayer. The steric hindrance at both ends is small, facilitating facile attachment to other molecules. The valence states of the central atom E (E = Si, Ge, Sn) are close to zero, indicating that they are stable novel heterometallic sandwich compounds, and the Zintl ligands at both ends are negative, thus they can react with Lewis acids. Bonding analysis showed that the E₉^2- (E = Si, Ge, Sn) cluster has a delocalized framework bonding mode. For aromaticity analysis, we used AdNDP, ELF, LOL, ICSS, and NICS to qualitatively and quantitatively clarify that these clusters possess the characteristics of overall delocalization, σ aromaticity, and remarkable stability. By analyzing the unique structure and predicting the reaction sites, we concluded that the E₉^2- ligand reacts with Lewis acids. Finally, through the adsorption of hydrogen molecules, the average adsorption energies of 1-3 were 0.387, 0.374, and 0.325 eV per H₂ molecule, respectively, meeting the physical adsorption standard, with the adsorption effect of 3 being slightly more superior than that of 1 and 2. Our study represents a substantial step forward in the study of high-density materials for volumetric H₂ storage applications.

Blue TiO2 nanotube electrocatalytic membrane electrode for efficient electrochemical degradation of organic pollutants

In this study, a Ti³⁺-doped TiO₂ porous membrane (Blue TiO₂/Ti) was fabricated and employed for electrochemical degradation of organic pollutants in the single-pass flow-through mode. Characterizations including X-ray diffraction (XRD), X-ray photoelectron spectroscopy (XPS), scanning electron microcopy (SEM) and energy dispersive spectroscopy (EDS) verified that Ti³⁺-doped anatase TiO₂ with nanotube structures was successfully prepared. Electrochemical analysis including linear sweep voltammetry (LSV), cyclic voltammetry (CV), electrochemical impedance spectroscopy (EIS) and electrochemical active surface area (ESA) revealed higher oxygen evolution potential (OEP, 2.23 V vs. Ag/AgCl), larger redox peak current, lower impedance and larger ESA (69 cm²/cm²) of Blue TiO₂/Ti compared to the Ti and TiO₂/Ti membranes. The effects of current density, flow rate and solution environment on the removal of methylene blue (MB) were investigated. The removal rates of various organic pollutants including sulfamethoxazole (SMX), methyl orange (MO), bisphenol A (BPA) and MB could reach 92.2%-99.5%. The quenching experiment proved that hydroxyl radicals (•OH) played the major role in the Blue TiO₂/Ti based electrochemical system. Furthermore, the degradation pathways of two typical pollutants (SMX and MB) were proposed by analyzing the oxidation products with liquid chromatography-mass spectrometry (LC-MS) and gas chromatography-mass spectrometry (GC-MS), with the assistance of orbital-weighted Fukui index (f_w⁰ and f_w^-) obtained through Density Functional Theory (DFT) calculations. Moreover, toxicity indexes of the oxidation products were obtained and compared to the parent SMX and MB using Toxicity Estimation Software Tool (TEST) software. Finally, the long-term operation performance of the Blue TiO₂/Ti membrane was evaluated.

Self-Assembly of a Graphene Oxide Liquid Crystal for Water Treatment

Adsorbents, especially those with high removal efficiency, long life, and multi-purpose capabilities, are the most crucial components in an adsorption system. By taking advantage of the liquid-like mobility and crystal-like ordering of liquid crystal materials, a liquid crystal induction method is developed and applied to construct three-dimensional graphene-based adsorbents featuring excellent shape adaptability, a distinctive pore structure, and abundant surface functional groups. When the monoliths are used for water restoration, the large amount of residual oxygen-containing groups is more susceptible to electrophilic attack, thus contributing to cation adsorption (up to 705.4 mg g^-1 for methylene blue), while the connected microvoids between the aligned graphene oxide sheets facilitate mass transfer, e.g., the high adsorption capacity for organic pollutants (196.2 g g^-1 for ethylene glycol) and the high evaporation rate for water (4.01 kg m^-2 h^-1). This work gives a practical method for producing high-performance graphene-based functional materials for those applications that are sensitive to surface and mass transfer properties.

Estudio teórico de la oxidación de CO con O2 usando catalizadores de Au-Pd y Au-Pt

En el presente estudio se realizaron cálculos con base en la Teoría del Funcional de la Densidad Electrónica (DFT) con la aproximación B3PW91/LANL2DZ para optimizar los sistemas monometálicos y bimetálicos Au9, Au8Pd, Au8Pt, AuPd8, AuPt8, Pd9 y Pt9. Los materiales fueron teóricamente evaluados como catalizadores para la oxidación de monóxido de carbono (CO) y se determinó el sistema más favorable para la adsorción de esta molécula. La sustitución de átomos de Pt y Pd por átomos de Au en los nonámeros generó un cambio en la estructura tridimensional del sistema. El análisis de reactividad global mostró que el clúster más reactivo es 𝑃𝑡9, seguido por 𝐴𝑢𝑃𝑡8. Los índices de Fukui identificaron los sitios más susceptibles para un ataque nucleofílico de ambos clústeres. La adsorción de CO generó una cascada de oxidación que liberó ~4,5 eV, indicando que la reacción es altamente exotérmica y exergónica. Los clústeres 𝐴𝑢𝑃𝑡8 y 𝑃𝑡9 mostraron los valores más bajos de energía de activación de la etapa determinante del mecanismo. En general, la sustitución de un átomo de platino (o paladio) por un átomo de oro no afecta la reactividad de los nonámeros y, por tanto, se infiere que el clúster 𝐴𝑢𝑃𝑡8 podría ser un catalizador promisorio en la oxidación de CO.

Mechanistic insights into the efficient activation of peracetic acid by pyrite for the tetracycline abatement

Recently, iron-based heterogenous catalysts have received much attention in the activation of peracetic acid (PAA) for generating reactive radicals to degrade organic pollutants, yet the PAA activation efficiency is compromised by the slow transformation from Fe(III) to Fe(II). Herein, considering the electron-donating ability of reducing sulfur species, a novel advanced oxidation process by combining pyrite and PAA (simplified as pyrite/PAA) for the abatement of tetracycline (TC) is proposed in this study. In the pyrite/PAA process, TC can be completely removed within 30 min under neutral conditions by the synergy of homogeneous and heterogenous Fe(II) species. CH₃C(O)OO• is the main radical generated from the pyrite/PAA process responsible for TC abatement. The excellent activation properties of pyrite can be attributed to the superior electron-donating ability of reducing sulfur species to facilitate the reduction of Fe(III). Meanwhile, the complexation of leached Fe²⁺ with TC favors PAA activation and concomitant TC abatement. In addition, the degradation pathways of TC and the toxicity of the degradation intermediates are analyzed. The pyrite/PAA process shows an excellent TC abatement efficacy in the pH range of 4.0∼10.0. The coexistence of Cl^-, HCO₃^-, and HPO₄^2- exhibits negligible effect on TC abatement, while the HA slightly inhibits the abatement rate of TC. This study highlights the efficient activation of PAA by pyrite and the important role of sulfur in promoting the conversion of Fe(III) to Fe(II) in the pyrite/PAA process.

Molecular interactions from the density functional theory for chemical reactivity: Interaction chemical potential, hardness, and reactivity principles

In the first paper of this series, the authors derived an expression for the interaction energy between two reagents in terms of the chemical reactivity indicators that can be derived from density functional perturbation theory. While negative interaction energies can explain reactivity, reactivity is often more simply explained using the “|dμ| big is good” rule or the maximum hardness principle. Expressions for the change in chemical potential (μ) and hardness when two reagents interact are derived. A partial justification for the maximum hardness principle is that the terms that appear in the interaction energy expression often reappear in the expression for the interaction hardness, but with opposite sign.

Thiophene/selenophene-based S-shaped double helicenes: regioselective synthesis and structures

2,5-Di(trimethylsilanyl)dithieno[2,3-b:3′,2′-d]thiophene ((TMS)₂-bb-DTT), 2,5-di(trimethylsilanyl)diseleno[2,3-b:3′,2′-d]thiophene ((TMS)₂-bb-DST), and 2,5-di(trimethylsilanyl)diseleno[2,3-b:3′,2′-d] selenophene ((TMS)₂-bb-DSS) were used as starting materials to synthesize three S-shaped double helicenes (i.e., DH-1, DH-2, and DH-3) through monobromination, formylation, the Wittig reaction, and double oxidative photocyclization. The photocyclization was a highly regioselective process. The molecular structures of DH-1 and DH-2 were confirmed by X-ray single-crystal analysis. Multiple intermolecular interactions, such as C–S, C–Se, S–S, S–Se, and Se–Se, were observed in the crystal packing structures of these compounds. Spectroscopic results and our previous work showed that the combination of molecular structure change and heteroatom replacement from S to Se could precisely modulate molecular energy levels.

Evaluation of Slight Changes in Aromaticity through Electronic and Density Functional Reactivity Theory-Based Descriptors

Aromaticity is a useful tool to rationalize the structure, stability, and reactivity in several compounds. Although aromaticity is not directly an observable, it is well accepted that electronic delocalization around the molecular ring is a key stabilizing feature of aromatic compounds. This contribution presents a systematic evaluation of the capability of delocalization and reactivity criteria to describe aromaticity in a set of fluorinated benzenes. The aromaticity indices are compared with quantities obtained from the magnetic criteria of aromaticity, i.e., the strength of the ring current induced by an external magnetic field and the popular NICS _zz (1) index. In this evaluation, the indices based on delocalization criteria used are aromatic fluctuation index (FLU), para-delocalization index (PDI), PDI_π, and the multicenter delocalization index (MCI). In addition, indices based on the bifurcation values of scalar functions are derived from electron density such as electron localization function (the π contribution, ELF_π) and the π contribution of the localized orbital locator (LOL_π). Furthermore, reactivity indices based on chemical reactivity and the information-theoretic (reactivity) approach are para-linear response (PLR), Shannon entropy, Fisher information, and Ghosh-Berkowitz-Parr (GBP) entropy. The results obtained show that the delocalization-based indicators present a high sensitivity to slight changes in aromaticity and that the reactivity criterion can be considered as a complementary tool for the study of this phenomenon, even when these changes are minimal. These results encourage the use of multiple indicators for a complete understanding of aromaticity in various chemical compounds.

Activation of peroxymonosulfate by a floating oxygen vacancies - CuFe2O4 photocatalyst under visible light for efficient degradation of sulfamethazine

In this study, expanded perlite supported oxygen vacancies-CuFe₂O₄ (OVs-CFEp) was synthesized via a simple method and utilized as floating catalyst to activate peroxymonosulfate (PMS) for the removal of sulfamethazine (SMT) under visible light irradiation. OVs-CFEp/Vis/PMS synergy presents much superior performance than that of OVs-CFEp/Vis system and OVs-CFEp/PMS system. PMS was efficiently activated by OVs-CFEp at a wide range of pH values, while the degrading rate of SMT was up to 95% in OVs-CFEp/Vis/PMS system. Oxygen vacancies and ·O₂^- accelerated the conversion of Fe(III)/Fe(II) and Cu(I)/Cu(II). The combination of the floating loader boosted light absorption capacity and sufficiently prevented metal ions leaching, which was all beneficial to enhance catalytic performance and recyclability. Besides, the reactive oxygen species were investigated systematically, proving that visible light and OVs-CFEp could activate PMS to produce ·SO₄^-, ·OH, O₂·^-, and ¹O₂ reactive species. Furthermore, based on intermediates identification and Density Functional Theory (DFT) calculation, three types and seven main degradation pathways involving cleavage of bond, SMT molecular rearrangement, and hydroxylation reaction were proposed. So this high photo-absorbing catalyst coupling with advanced oxidation progress was promising for extensive environmental remediation.

Transformation of amino acids and formation of nitrophenolic byproducts in sulfate radical oxidation processes

In this study, the transformation of five amino acids (AAs), i.e., glycine (GLY), alanine (ALA), serine (SER), aspartic acid (ASP), and methionine (MET), in a heat activated peroxydisulfate (PDS) oxidation process was investigated. Experimental data showed that the nitrogen in the AA molecules was oxidized to NH₄⁺ and nitrate (NO₃^-) sequentially. However, in the presence of natural organic matter (NOM), nitrophenolic byproducts including 4-nitrophenol, 2,4-dinitrophenol, 5-nitrosalicylic acid, 3,5-dinitrosalicylic acid were formed. The nitrogen dioxide radical (NO₂^•) generated during the transformation of NH₄⁺ to NO₃^- was presumed to be the key nitrating agent. It reacted with phenolic moieties in NOM and was transformed to nitrophenolic byproducts. Among the selected AAs, SER showed the highest nitrophenolic byproducts formation potential. A total yield of 0.258 μM was observed at the condition of 0.1 mM SER, 5 mg/L (as TOC) NOM, 2 mM PDS, and pH 7.0. The formation from GLY and ALA was lowest, only 0.009 μM detected under the same conditions. The nitrophenolic byproducts formation potential of the AAs was positively related to their reactivity toward SO₄^•- and can be explained by the local nucleophilicity index (N_k). These findings underline the potential risks in the application of SO₄^•- based oxidation technology.

Assessing Alkene Reactivity toward Cytochrome P450-Mediated Epoxidation through Localized Descriptors and Regression Modeling

The prediction of sites of epoxidation by cytochrome P450s during metabolism is particularly important in drug design, as epoxides are capable of alkylating biological macromolecules. Reliable methods are needed to quantitatively predict P450-mediated epoxidation barriers for inclusion in high-throughput screening campaigns alongside protein-ligand docking. Utilizing the fractional occupation number weighted density (FOD) and orbital-weighted Fukui index (f_w⁺) as descriptors of local reactivity and a data set of 36 alkene epoxidation barriers computed with density functional theory (DFT), we developed and validated a multiple linear regression model for the reliable estimation of epoxidation barriers using only substrate structures as input. Using our recommended level of theory (GFN2-xTB//GFN-FF), mean absolute errors in the training and test sets were found to be 0.66 and 0.70 kcal/mol, respectively, with coefficients of determination of ca. 0.80. We demonstrate the utility of this approach on three known substrates of CYP101A1 and further show that this approach is inappropriate for particularly electron-rich alkenes. By employing a modern semiempirical method on force-field-generated geometries, the required descriptors can be calculated on the millisecond timescale per structure, making the approach well suited for incorporation into high-throughput methodologies alongside docking.

Enhanced visible light photo-Fenton-like degradation of tetracyclines by expanded perlite supported FeMo3Ox/g-C3N4 floating Z-scheme catalyst

In the conventional Fenton system, the relatively low efficiency of Fe (II) regeneration is a significant drawback. To address this shortcoming, a novel floating Z-scheme photo-Fenton catalyst FeMo₃O_x/g-C₃N₄/EP was prepared by a facile dip-calcination method, in which iron and molybdenum oxides with mixed valence states (FeMo₃O_x) and graphitic carbon nitride (g-C₃N₄) were loaded on the expanded perlite. The removal efficiencies reached the maximum at 98.0%, 93.1% and 97.1% for tetracycline, oxytetracycline and chlortetracycline, respectively, after 60 min dark adsorption and 60 min photo-Fenton process. The aid of dual ion (Fe and Mo) synergy system and photoreduction by Z-scheme photocatalyst enhanced the Fe (II) regeneration, resulting in the excellent performance. Radical scavenger experiment, electron spin resonance spectra (ESR) and X-ray photoelectron spectra (XPS) were used to confirm the mechanism of free radicals' formation and Fe/Mo redox cycling. ·OH, ·O₂^- and ¹O₂ played important roles in the pollutant's degradation, while the generation of ·O₂^- was enhanced due to the floatability in this system. The possible degradation pathways of TC were put forward according to the results of mass spectrum and Orbital-Weighted Fukui Function. Overall, this work provides new insights on the cooperation between iron-based mix oxides and semiconductor in the photo-Fenton system.

Efficient degradation of organic dyes using peroxymonosulfate activated by magnetic graphene oxide

Magnetic graphene oxide (MGO) was prepared and used as a catalyst to activate peroxymonosulfate (PMS) for degradation of Coomassie brilliant blue G250 (CBB). The effects of operation conditions including MGO dosage, PMS dosage and initial concentration of CBB were studied. CBB removal could reach 99.5% under optimum conditions, and high removals of 98.4–99.9% were also achieved for other organic dyes with varied structures, verifying the high efficiency and wide applicability of the MGO/PMS catalytic system. The effects of environmental factors including solution pH, inorganic ions and water matrices were also investigated. Reusability test showed that CBB removals maintained above 90% in five consecutive runs, indicating the acceptable recyclability of MGO. Based on quenching experiments, solvent exchange (H₂O to D₂O) and in situ open circuit potential (OCP) test, it was found that ˙OH, SO₄˙⁻ and high-valent iron species were responsible for the efficient degradation of CBB in the MGO/PMS system, while the contributions of O₂˙⁻, ¹O₂ and the non-radical electron-transfer pathway were limited. Furthermore, the plausible degradation pathway of CBB was proposed based on density functional theory (DFT) calculations and liquid chromatography-mass spectrometry (LC-MS) results, and toxicity variation in the degradation process was evaluated by computerized structure–activity relationships (SARs) using green algae, daphnia, and fish as indicator species.

Efficient degradation of organic dyes with PMS and magnetic graphene oxide.

Kick-Fukui: A Fukui Function-Guided Method for Molecular Structure Prediction

Here, we introduce a hybrid method, named Kick-Fukui, to explore the potential energy surface (PES) of clusters and molecules using the Coulombic integral between the Fukui functions in the first screening of the best individuals. In the process, small stable molecules or clusters whose combination has the stoichiometry of the explored species are used as assembly units. First, a small set of candidates has been selected from a large and stochastically generated (Kick) population according to the maximum value of the Coulombic integral between the Fukui functions of both fragments. Subsequently, these few candidates are optimized using a gradient method and density functional theory (DFT) calculations. The performance of the program has been evaluated to explore the PES of various systems, including atomic and molecular clusters. In most cases studied, the global minimum (GM) has been identified with a low computational cost. The strategy does not allow to identify the GM of some silicon clusters; however, it predicts local minima very close in energy to the GM that could be used as the initial population of evolutionary algorithms.

Theoretical research on cage-like furazan-based energetic compounds and its derivatives

In this manuscript, we reported the design and prediction of two furazan-based cage-like molecules and their derivatives using density function theory (DFT). The heat formation and detonation properties were calculated using Hess's law and Kamlet-Jacobs equations with the B3PW91 method. The molecular stability and geometry were analyzed using the M06-2X method, and molecular crystal structures were predicted based on Monte Carlo simulation, while chemical reactive sites were judged using the PBE0 method based on Fukui function. The theoretical calculation result proved that the designed molecules exhibit ideal symmetric cage-like geometry and show superior physicochemical and detonation properties. Compared with traditional energetic materials, the designed molecules display more positive solid heat formation and lower sensitivity. The designed molecules could be considered promising high energy density material candidates with potential synthesis and application value. Two designed molecules display superior detonation performance and ideal completely symmetric cage-like geometry, which were proved theoretically as a promising HEDM candidate. A series of derivatives also exhibited excellent crystal density and physicochemical properties, while with more stable structure.

Theobroma cacao L. compounds: Theoretical study and molecular modeling as inhibitors of main SARS-CoV-2 protease

Cocoa beans contain antioxidant molecules with the potential to inhibit type 2 coronavirus (SARS-CoV-2), which causes a severe acute respiratory syndrome (COVID-19). In particular, protease. Therefore, using in silico tests, 30 molecules obtained from cocoa were evaluated. Using molecular docking and quantum mechanics calculations, the chemical properties and binding efficiency of each ligand was evaluated, which allowed the selection of 5 compounds of this series. The ability of amentoflavone, isorhoifolin, nicotiflorin, naringin and rutin to bind to the main viral protease was studied by means of free energy calculations and structural analysis performed from molecular dynamics simulations of the enzyme/inhibitor complex. Isorhoifolin and rutin stand out, presenting a more negative binding ΔG than the reference inhibitor N-[(5-methylisoxazol-3-yl)carbonyl]alanyl-l-valyl-N~1~-((1R,2Z)-4-(benzyloxy)-4-oxo-1-{[(3R)-2-oxopyrrolidin-3-yl]methyl}but-2-enyl)-L-leucinamide (N3). These results are consistent with high affinities of these molecules for the major SARS-CoV-2. The results presented in this paper are a solid starting point for future in vitro and in vivo experiments aiming to validate these molecules and /or test similar substances as inhibitors of SARS-CoV-2 protease.

New insights in chemical reactivity from quantum chemical topology

Based on the quantum chemical topology of the modified electron localization function ELF_x , an efficient and robust mechanistic methodology designed to identify the favorable reaction pathway between two reactants is proposed. We first recall and reshape how the supermolecular interaction energy can be evaluated from only three distinct terms, namely the intermolecular coulomb energy, the intermolecular exchange-correlation energy and the intramolecular energies of reactants. Thereafter, we show that the reactivity between the reactants is driven by the first-order variation in the coulomb intermolecular energy defined in terms of the response to changes in the number of electrons. Illustrative examples with the formation of the dative bond B-N involved in the BH₃ NH₃ molecule and the typical formation of the hydrogen bond in the canonical water dimer are presented. For these selected systems, our approach unveils a noticeable mimicking of E_dual onto the DFT intermolecular interaction energy surface calculated between the both reactants. An automated reaction-path algorithm aimed to determine the most favorable relative orientations when the two molecules approach each other is also outlined.

PRIMoRDiA: A Software to Explore Reactivity and Electronic Structure in Large Biomolecules

Plenty of enzymes with structural data do not have their mechanism of catalysis elucidated. Reactivity descriptors, theoretical quantities generated from resolved electronic structure, provide a way to predict and rationalize chemical processes of such systems. In this Application Note, we present PRIMoRDiA (PRIMoRDiA Macromolecular Reactivity Descriptors Access), a software built to calculate the reactivity descriptors of large biosystems by employing an efficient and accurate treatment of the large output files produced by quantum chemistry packages. Here, we show the general implementation details and the software main features. Calculated descriptors were applied for a set of enzymatic systems in order to show their relevance for biological studies and the software potential for use in large scale. Also, we test PRIMoRDiA to aid in the interaction depiction between the SARS-CoV-2 main protease and a potential inhibitor.

Orbital-Weighted Dual Descriptor for the Study of Local Reactivity of Systems with (Quasi-) Degenerate States

An alternative response function, based on the dual descriptor in terms of Koopmans' approximation, is hereby proposed for the description of chemical reactivity in systems with (quasi-) degenerate frontier molecular orbitals. This descriptor is constructed from Fukui functions that include contributions from different orbitals, i.e., orbital-weighted Fukui functions. The methodology is applied to three case studies: the first case consists of a series of benchmark organic and inorganic molecules from which the dual descriptor, based only on frontier orbitals, is not appropriate to describe their reactivity. The second case deals with the proper description of chemical reactivity in Diels-Alder reactions between fullerene C₆₀ and cyclopentadiene (CP), revealing the importance of considering secondary orbital interactions for an adequate regioselectivity description. The third, and last case, consists of a series of polycyclic aromatic hydrocarbons (PAHs) possessing molecular orbital degeneracy. By means of analyzing of this descriptor, an alternative approach to the description of aromaticity is proposed. In all cases, the proposed index called "orbital-weighted dual descriptor" has proven to accurately describe the chemical reactivity and aromaticity of the studied systems.

Interpreting Aromaticity and Antiaromaticity through Bifurcation Analysis of the Induced Magnetic Field

In all molecules, a current density is induced when the molecule is subjected to an external magnetic field. In turn, this current density creates a particular magnetic field. In this work, the bifurcation value of the induced magnetic field is analyzed in a representative set of aromatic, non-aromatic and antiaromatic monocycles, as well as a set of polycyclic hydrocarbons. The results show that the bifurcation value of the ring-shaped domain adequately classifies the studied molecules according to their aromatic character. For aromatic and nonaromatic molecules, it is possible to analyze two ring-shaped domains, one diatropic (inside the molecular ring) and one paratropic (outside the molecular ring). Meanwhile, for antiaromatic rings, only a diatropic ring-shaped domain (outside the molecular ring) is possible to analyze, since the paratropic domain (inside the molecular ring) is irreducible with the maximum value (attractor) at the center of the molecular ring. In some of the studied cases, i. e., in heteroatomic species, bifurcation values do not follow aromaticity trends and present some inconsistencies in comparison to ring currents strengths, showing that this approximation provides only a qualitative estimation about (anti)aromaticity.

Using local softness to reveal oxygen participation in redox processes in cathode materials

In this paper, the use of chemical local softness s(r) is proposed as an alternative way of analyzing the initial redox processes that occur in cathode materials used for lithium-ion batteries. It is shown that the chemical local softness is a quantity able to capture the same effects as the standard analysis based on the projected density of states. Because of its own nature, the local softness reveals the atomic sites involved in charge-transfer events and allows a quantitative comparative analysis between different materials. As pointed out by Johannes et al. (Solid State Ion 286:83-89, 2016), this analysis can be used as an indicator of stability of cathode materials for Li-ion batteries.