Quantum Chemical Calculations Research Articles

Kinetic and mechanistic studies on the synthesis of dimethyl carbonate reaction using deep eutectic solvents as catalysts

Dimethyl carbonate (DMC) is extensively utilized in various industries due to its exceptional physical and chemical properties, functioning as an additive in gasoline and an electrolyte solvent in lithium batteries. Among several production methods, the transesterification of propylene carbonate (PC) with methanol (MeOH) is the most efficient and environmentally friendly. This study synthesized various deep eutectic solvents (DESs) using choline chloride (ChCl) as the hydrogen bond acceptor (HBA) and monoethanolamine (MEA) as the hydrogen bond donor (HBD) in molar ratios of 1: n (n = 5, 6, 7, 8). The DESs’ structures were analyzed using Fourier Transform Infrared (FT-IR) spectroscopy, and their melting points were determined via differential scanning calorimetry (DSC). The density, viscosity, and surface tension of the DESs were measured over a temperature range from 318.15 K to 358.15 K. The catalytic effects of four different DESs on PC transesterification with MeOH were investigated, revealing that ChCl-6MEA was the most effective catalyst, prompting its selection for further experiments. Subsequent investigations examined the effects of temperature, MeOH quantity, and catalyst dosage on PC conversion and DMC yield. Additionally, this study explored chemical equilibrium and reaction kinetics through experimental and theoretical approaches. Activity-based chemical equilibrium constants, derived from experimental data, and the van’t Hoff equation elucidated their temperature dependency. A pseudo-homogeneous (PH) model characterized the non-ideal thermodynamic behavior of the liquid phase in reaction kinetics analysis. The Arrhenius equation was employed to delineate the impact of temperature variations on reaction rate constants. Finally, the proposed reaction mechanism for ChCl-6MEA catalyzed transesterification was elucidated and verified through quantum chemistry (QC) calculations.

Infrared spectroscopic characterization of sesamin, a dietary lignan natural product.

Sesamin, a lignan component of sesame seed oil, has shown pharmacologic benefits, such as anti-oxidative and anti-inflammatory qualities. However, the amount of data available to the field is surprisingly sparse, as for instance there is no known spectroscopic characterization of sesamin. This work provides the first experimental infrared spectrum of sesamin. Sesamin powder was subjected to experimental Fourier-transform infrared spectroscopy, and the resulting spectrum was compared to quantum chemical calculations of sesamin's stereoisomers in various hydration states. Major peaks of sesamin were assigned vibrational modes through comparison of computed and observed spectra. Multiple sesamin species may be present in a typical powder sample, coexisting with potential trace hydration.

Sanyensin with an Unprecedented Architecture: An Effective Strategy from Discovery to Stereochemical Identification of Flexible Natural Products.

Under the guidance of genome mining combined with bioassay-coupled metabolomic analyses, an unprecedented macrodiolide sanyensin (1), with two flexible macrolides fused by the rigid oxabicyclo[3.3.1]nonane core, was isolated from the deep-sea-derived Streptomyces sp. OUCT16-30. The stereochemistry of 1 was established by NOEs (nuclear Overhauser effects), J-based configuration analysis, Marfey's analysis, and together with a newly introduced stereochemical study workflow, which greatly shortens the time to obtain correct conformations of flexible structures based on the NMR constraints, thus leading to reliable quantum chemical calculations to establish the absolute configurations. This workflow is expected to have broad applicability for elucidating the stereochemistry of flexible natural products. The macrodiolide framework of 1 is proposed to be formed through a biocatalytic cyclodimerization, followed by a series of nonenzymatic reactions. This work leads to new insights into the unexplored biosynthetic potential of deep-sea microbes and also provides a practical streamline for efficient mining of novel natural products, from discovery to stereochemical finalization.

Separation of ethanol/n-hexane azeotrope by imidazolium ionic liquids: Experimental study and mechanism analysis

In the process of producing low-carbon alcohols from coal, azeotropic waste containing ethanol and n-hexane is generated. To prevent environmental risks and resource waste from solvent loss, this study selected green solvent ionic liquids (ILs) for their separation. First, we screened five anions with high selectivity based on the conductor-like screening model for realistic solvents (COSMO-RS), and through various quantum chemical calculations, we found that the anions play a significant role in the separation of the two components, with [HSO4]− showing the best separation performance. Second, we predicted the phase equilibrium data for ILs containing [HSO4] − in the azeotropic system, considering practical factors such as price and viscosity, and selected [EMIM][HSO4], [BMIM][HSO4], and [HMIM][HSO4] for experiments. The results indicated that simpler cation side chains enhance the separation capability of the system. Then, a toxicity analysis of the ILs ensured their biocompatibility and feasibility. Finally, we established the extraction distillation process and visualized the interactions between the ILs and the azeotropic system through molecular dynamics simulations. This work provides theoretical guidance for the separation of alcohols and alkanes in the industry.

Adsorption sites and interactions of pigments in molasses-based distillery effluent on starch-based composites: Ternary competitive adsorption and theoretical calculations

The pigment present in molasses-based distillery effluent constitutes a primary factor influencing its degradation. Adsorption is an effective approach to eliminate pigment from wastewater. In this study, a cationic cassava starch (CCS) magnetic composite (CCS@Fe3O4) was prepared and used as adsorbents for the removal of undesirable pigments. The adsorption behaviors of caffeic acid (CA), gallic acid (GA), and melanoidin (ME) on CCS@Fe3O4 in the wastewater were investigated using single and ternary competitive adsorption systems. The equilibrium adsorption capacities of CA, GA, and ME on CCS@Fe3O4 were 197.04, 195.55, and 623.97 mg/g at the optimized conditions (0.3 mg/mL CCS@Fe3O4 dosage, temperature of 38 °C, and pH of 7). The adsorption kinetic model showed that chemisorption accounted for most of the adsorption of CA, GA, and ME on CCS@Fe3O4. The adsorption mechanisms of pigments on CCS@Fe3O4 were explored at the molecular level through quantum chemical calculations. The electrostatic potentials (ESP), average local ionisation energy (ALIE), and Fukui indices calculation indicated that the quaternary ammonium group in CCS@Fe3O4 was more susceptible to electrophilic reactions. The CC and benzene rings in CA and GA, and the COO- in ME, represent sites of attack for quaternary ammonium during adsorption. Furthermore, the competitive adsorption results, adsorption energy, and electron transfer data demonstrated that the adsorption capacity of CCS@Fe3O4 for pigments followed the order ME>GA>CA. Overall, the competitive adsorption mechanisms of CA, GA, and ME on CCS@Fe3O4 were unveiled, with quantum chemical calculations offering crucial insights into the adsorption process.

Structural design and performance correlation of porous Poly(ionic liquid)S for 2-bromophenol adsorption

The demand for bromophenol is on the rise, driven by its extensive applications in industries, including human medicine. This surge in demand has spurred the development of eco-friendly methods for bromophenol recovery and the synthesis of new, low-toxicity compounds. In our study, we prepared a novel poly(ionic liquid) (PIL) featuring a benzene ring. The synthesis of this PIL involved using benzyl alcohol as the primary crosslinking agent, dimethoxymethane as an auxiliary crosslinking agent, and an imidazolium-based ionic liquid monomer, [Dimbb]Cl₂, for the adsorption of 2-bromophenol from aqueous solutions. We designed the PIL to be a high-performance and sustainable adsorbent by optimizing its specific surface area and pore structure. Structural analysis revealed that the PILs have a highly rich micro-mesoporous structure. The adsorption kinetics conformed to pseudo-second-order kinetics, reaching equilibrium in just 6 min. According to the Langmuir model, PIL-1 demonstrated a remarkable maximum adsorption capacity of 434.71 mg/g for 2-bromophenol. Quantum chemical calculations suggested that the adsorption mechanism involves processes such as pore filling, hydrogen bonding, electrostatic interactions, and π-π interactions. Furthermore, the adsorbent can be effectively recovered at least five times using anhydrous ethanol as the desorption agent, while maintaining an adsorption efficiency exceeding 90 %.

Interactions between polycyclic aromatic hydrocarbons (PAHs) and phospholipids cause PAH migration into wet gums during the oil degumming process

The refining process can reduce PAH contamination levels in vegetable oils, but the safety of byproducts requires further attention. We hypothesize that interactions between PAHs and phospholipids could contribute to PAH migration into the wet gums and subsequently evaluated the distribution of PAHs during different degumming processes. Enzymatic degumming achieved over 99.90 % removal of phospholipids from soybean oil and sunflower seed oil and minimized the toxic equivalency quotient of PAHs in wet gums (approximately 0.05 μg/kg). Notably, greater PAH reduction was correlated with greater phospholipid removal in degummed soybean oil. Quantum chemical calculations indicated that van der Waals forces between PAHs and phospholipids could cause PAH migration, with higher phospholipid contents and PAH contamination in soybean oil providing more favourable conditions than in sunflower seed oil. This study will help to improve the quality of edible oils and provide information on the mechanisms underlying PAH migration.

Quantum computational and experimental spectroscopic investigation (FT-IR, Raman, UV–Vis), PES, LHE and topological investigations of 7-[(2R)-2-hydroxypropyl]-1,3-dimethylpurine-2,6-dione

The current research explored the structural optimization, electrical and vibrational characteristics, and quantum chemical calculations via the procedure of DFT for a purine derivative, 7-[(2R)-2-hydroxypropyl]-1,3-dimethylpurine-2,6-dione (2HDPD). Functional groups were found by correlating FT-IR with simulated spectra. TD-DFT calculations were done for UV–vis absorption and to ascertain the electronic properties of both the solvent and the gas phase, enabling additional study of the compounds LHE. The experimental outcomes and theoretic parameters are in good agreement. LUMO and HOMO band gaps spectacle that the molecule is chemically reactive and that there is adequate charge transfer. Polar solvent exhibits the highest band gap value, 5.057 eV. Numerous topological considerations were accomplished using the Multiwfn tool. Charge transfer investigations have demonstrated the most imperative states. Weak intermolecular interactions were investigated using RDG analysis, LOL, NBO, and ELF. The 2HDPD compounds reactive areas were discovered by applying the MEP and Fukui investigations. Hyperpolarizability characteristics were used to calculate NLO behavior. The drug-like characteristics of the molecule follow Lipinski five rules. After docking with the proteins 1NG2, 2DVV, 3CAF, and 7OEX, the compound 2HDPD showed moderate binding affinities of −5.28, −5.04, −4.96, and −5.66 kcal/mol, in that order. The Ramachandran plot verified the proteins stability and advantageous locations. The Docking results show compound 2HDPD exhibited a COPD property.

Photoexcitation and One-Electron Reduction Processes of a CO2 Photoreduction Dyad Catalyst Having a Zinc(II) Porphyrin Photosensitizer.

We have explored the photophysical properties and one-electron reduction process in the dyad photocatalyst for CO2 photoreduction, ZnP-phen=Re, in which the catalyst of fac-[Re(1,10-phenanthoroline)(CO)3Br] is directly connected with the photosensitizer of zinc(II) porphyrin (ZnP), using time-resolved infrared spectroscopy, transient absorption spectroscopy, and quantum chemical calculations. We revealed the following photophysical properties: (1) the intersystem crossing occurs with a time constant of ∼20 ps, which is much faster than that of a ZnP single unit, and (2) the charge density in the excited singlet and triplet states is mainly localized on ZnP, which means that the excited state is assignable to the π-π* transition in ZnP. The one-electron reduction by 1,3-dimethyl-2-phenyl-2,3-dihydro-1H-benzo[d]imidazole occurs via the triplet excited state with the time constant of ∼100 ns and directly from the ground state with the time constant of ∼3 μs. The charge in the one-electron reduction species spans ZnP and the phenanthroline ligand, and the dihedral angle between ZnP and the phenanthroline ligand is rotated by ∼24° with respect to that in the ground state, which presumably offers an advantage for proceeding to the next CO2 reduction process. These insights could guide the new design of dyad photocatalysts with porphyrin photosensitizers.

Role of Intermolecular Interactions in Deep Eutectic Solvents for CO2 Capture: Vibrational Spectroscopy and Quantum Chemical Studies.

Recent research and reviews on CO2 capture methods, along with advancements in industry, have highlighted high costs and energy-intensive nature as the primary limitations of conventional direct air capture and storage (DACS) methods. In response to these challenges, deep eutectic solvents (DESs) have emerged as promising absorbents due to their scalability, selectivity, and lower environmental impact compared to other absorbents. However, the molecular origins of their enhanced thermal stability and selectivity for DAC applications have not been explored before. Therefore, the current study focuses on a comprehensive investigation into the molecular interactions within an alkaline DES composed of potassium hydroxide (KOH) and ethylene glycol (EG). Combining Fourier transform infrared (FT-IR) and quantum chemical calculations, the study reports structural changes and intermolecular interactions induced in EG upon addition of KOH and its implications on CO2 capture. Experimental and computational spectroscopic studies confirm the presence of noncovalent interactions (hydrogen bonds) within both EG and the KOH-EG system and point to the aggregation of ions at higher KOH concentrations. Additionally, molecular electrostatic potential (MESP) surface analysis, natural bond orbital (NBO) analysis, quantum theory of atoms-in-molecules (QTAIM) analysis, and reduced density gradient-noncovalent interaction (RDG-NCI) plot analysis elucidate changes in polarizability, charge distribution, hydrogen bond types, noncovalent interactions, and interaction strengths, respectively. Evaluation of explicit and hybrid models assesses their effectiveness in representing intermolecular interactions. This research enhances our understanding of molecular interactions in the KOH-EG system, which are essential for both the absorption and desorption of CO2. The study also aids in predicting and selecting DES components, optimizing their ratios with salts, and fine-tuning the properties of similar solvents and salts for enhanced CO2 capture efficiency.

Gas-liquid interfacial reaction mechanisms of typical small α-dicarbonyls in the neutral and acidic droplets: Implications for secondary organic aerosol formation

Small α-dicarbonyls (SαDs) are well-known as the important precursors of secondary organic aerosol (SOA). Hence, it is imperative to understand the atmospheric chemistry of SαDs to contribute to SOA formation. In this work, we investigated the interfacial chemistry of typical SαDs, including methylglyoxal (MG) and biacetyl (BA) in the neutral and acidic droplets by combined molecular dynamics and quantum chemical calculations. The trans configurations of MG and BA are found to be the favorable configurations at the interfaces and are prone to stay at the gas-liquid interface of the acidic droplet. The C=O group exhibits a preferential uptake orientation towards the interface because the carbonyl-O atom has a strong interaction with interfacial H2O. The uptakes and accumulations of MG and BA at the interfaces are promoted by the acidic condition. Subsequent interfacial hydrations of MG and BA in the acidic droplet are beneficial to yield diols, which can engage in oligomerization in the droplet interior to contribute SOA formation. Our results provide the theoretical insight into the interfacial chemistry of SαDs and their role in SOA formation.

‘Invisible’ Molecular Dynamics Revealed for a Conformationally Chiral π‐Stacked Perylene Bisimide Foldamer

Whilst energetic and kinetic aspects of folding processes are meanwhile well understood for natural biomacromolecules, the folding dynamics in so far studied artificial foldamer counterparts remain largely unexplored. This is due to the low energy barriers between their conformational isomers that make the dynamic processes undetectable with conventional methods such as UV/vis absorption, fluorescence, and NMR spectroscopy, making such processes ‘invisible’. Here we present an asymmetric perylene bisimide dimer (bis‐PBI 1) that possesses conformational chirality in its folded state. Owing to the large interconversion barrier (≥ 116 kJ mol–1), four stereoisomers could be separated and isolated. Since the interconversion between these stereoisomers requires the foldamer to first open and then to re‐fold, the transformation of one stereoisomer into others allowed us to ‘visualize’ the dynamics of folding with time and determine its lifetimes and the energetic barriers associated with the folding process. Supported by quantum chemical calculations, we identified the open structure to be only a fleeting metastable state of higher energy. Our experimental observation of the kinetics associated with the molecular dynamics in the PBI foldamer advances the fundamental understanding of folding in synthetic foldamers and paves the way for the design of smart functional materials.

Synthesis, characterization, in silico and in vitro assessment of 2-aminopyridine nicotinamide cocrystal as a new agent for breast cancer therapy

Breast cancer is the leading cause of cancer-related death among women globally, in spite of major advances in diagnosis and treatment. 2-Aminopyridine Nicotinamide (2APNA) cocrystal was synthesized and cocrystal formation was confirmed through powder XRD. Computational investigations in structural fields and spectroscopic parameters were conducted and compared with the experimental results. Comparing the optimized geometrical characteristics, it was observed that molecular properties of 2APNA closely match the previously reported experimental data. FT-IR and FT-Raman spectroscopic analysis revealed the theoretical wavenumbers agree better with recorded data and in UV–visible absorption a single peak was recorded at 247 nm showing n → π* transition. The 2APNA's stability, reactive nature, charge relocations were studied through quantum chemical calculation such as FMO, MEP, NBO, NLO and Mulliken charge analysis. The topological features of cocrystal 2APNA was examined through ELF, LOL and RDG studies. The anti-apoptotic protein BCL-2 was selected as a target in molecular docking analysis and the results expressed 2APNA's binding score as -8.2 kcal/mol. In vitro studies confirmed that 2APNA has 2APNA demonstrated an enhanced cell death in MCF-7 cells with the IC50 concentration of 56.58 µg/mL and decreased the expression of BCL-2, thus resulting in apoptotic cell death. These results indicated that 2APNA possess a potent anticancer property for the treatment of breast cancer.

'Invisible' Molecular Dynamics Revealed for a Conformationally Chiral π-Stacked Perylene Bisimide Foldamer.

Whilst energetic and kinetic aspects of folding processes are meanwhile well understood for natural biomacromolecules, the folding dynamics in so far studied artificial foldamer counterparts remain largely unexplored. This is due to the low energy barriers between their conformational isomers that make the dynamic processes undetectable with conventional methods such as UV/vis absorption, fluorescence, and NMR spectroscopy, making such processes 'invisible'. Here we present an asymmetric perylene bisimide dimer (bis-PBI 1) that possesses conformational chirality in its folded state. Owing to the large interconversion barrier (≥ 116 kJ mol-1), four stereoisomers could be separated and isolated. Since the interconversion between these stereoisomers requires the foldamer to first open and then to re-fold, the transformation of one stereoisomer into others allowed us to 'visualize' the dynamics of folding with time and determine its lifetimes and the energetic barriers associated with the folding process. Supported by quantum chemical calculations, we identified the open structure to be only a fleeting metastable state of higher energy. Our experimental observation of the kinetics associated with the molecular dynamics in the PBI foldamer advances the fundamental understanding of folding in synthetic foldamers and paves the way for the design of smart functional materials.

Amine-functionalized soy protein/graphene oxide aerogel for efficient removal of multiple sugar-derived contaminants (SDCs): Full life cycle exploration and interaction simulation

Sugar-derived contaminants (SDCs) pose significant environmental hazards and safety concerns, emerging as urgent issue. Using amine-modified soy protein (SPI) and graphene oxide (GO), an environment-friendly aerogel (PSPI/PGO) was synthesized to efficiently remove multiple SDCs. The equilibrium adsorption capacities of PSPI/PGO for melanoidins, caramels, and saccharin were 1124.2, 291.1, and 399.3 mg/g, respectively, surpassing those of previously proposed materials. A series of characterizations and experiments demonstrated that the porous PSPI/PGO exhibited high hydrophilicity, nontoxicity, excellent thermal stability, and sustainable capture properties. Emerging dynamic models (i.e., AOAS, EXT-INT, and LF-PC-AS) and multiple quantum chemical theory calculations (ESPL, ALIE, FMO, IGMH, and HSA) further revealed the capture of each SDC onto PSPI/PGO was driven predominantly by charge interactions, followed by H-bonding and intermolecular interactions. PSPI/PGO acts as an H-bonding acceptor in a diverse range of uptake processes for each SDC. The applicability of PSPI/PGO for treating real wastewater has been validated. The full lifecycle exploration of PSPI/PGO (including soil burial degradation tests, wastewater treatment, and garlic hydroponic experiments using depleted PSPI/PGO) underscores its considerable biocompatibility and potential for industrial applications.

High-Resolution Spectroscopy and Structure of Heavy Carbon Subchalcogenides: Tricarbon Selenide, C3Se.

Linear tricarbon selenide, C3Se, has been studied spectroscopically for the first time using a combination of high-resolution infrared and microwave techniques. Probing laser ablation products from carbon-selenium targets in a free jet expansion with He, initial spectroscopic detection was accomplished in the infrared at a wavelength of 5 μm in search of the ν1 vibrational fundamental. Along with the band of the most abundant isotopic species C380Se found centered at about 2039 cm-1, the corresponding bands of the C382Se, C378Se, C376Se, and C377Se isotopologues were also detected. Pure rotational spectra of the five C3Se isotopologues in the 8-18 GHz frequency range were observed in a supersonic jet expansion using chirped-pulse microwave spectroscopy of the discharge products of selenophene, c-C4H4Se. Spectroscopic analyses were guided by results from high-level quantum-chemical calculations carried out at the coupled-cluster level of theory using large correlation-consistent basis sets. Using the experimentally derived ground-state rotational constants of five isotopologues and calculated zero-point vibrational corrections, an accurate semiexperimental equilibrium carbon-selenium bond length is derived.

Prorocentin-5: A Cytotoxic Polyketide from the Benthic Marine Dinoflagellate Prorocentrum lima.

Prorocentrin-5 (1) was isolated from the benthic marine dinoflagellate Prorocentrum lima. A combination of NMR spectroscopy, quantum chemical calculations, and chemical reactions was then employed to elucidate its molecular structure, including the configurations of all stereogenic centers. In cytotoxicity assays, prorocentin-5 exhibited potent activity against the HCT-116 and Neuro2a cell lines, with IC50 values of 4.4 and 2.8 μM, respectively. Furthermore, 1 increased the apoptotic cell population and induced cell cycle arrest, leading to the accumulation of cells in the S or G2/M phase and an accompanying decrease in the G0/G1 phase in HCT-116, Neuro2a, and HepG2 cells.

Factors Determining the Selectivity of NO Reduction Catalyzed by Copper-Vanadium Oxide Cluster Anions Cu2VO3‒5.

Catalytic NO reduction by CO is imperative to satisfy the increasingly rigorous emission regulations. Identifying the structural characteristic of crucial intermediate that governs the selectivity of NO reduction is pivotal to having a fundamental understanding on real-life catalysis. Herein, benefiting from the state-of-the-art mass spectrometry, we demonstrated experimentally that the Cu2VO3-5- clusters can mediate the catalysis of NO reduction by CO, and two competitive channels to generate N2O and N2 can co-exist. Quantum-chemical calculations were performed to rationalize this selectivity. The formation of the ONNO unit on the Cu2 dimer was demonstrated to be a precursor from which two pathways of NO reduction start to emerge. In the pathway of N2O generation, only the Cu2 dimer was oxidized and the VO3 moiety functions as a "support", while both moieties have to contribute to anchor oxygen atoms from the ONNO unit and then N2 can be generated. This finding displays a clear picture to elucidate how and why the involvement of VO3 "support" can regulate the selectivity of NO reduction.

Quantum-chemical study of atomic X30 trefoil knots with X = {H, He, Li, Be, B, C}*

Quantum-chemical computations were carried out for a series of circumferences (unknots), trefoil and toric trefoil knots of X30 systems, with X with atomic numbers Z = {1-6}. Relaxed structures lead to different configurations, with the striking cases of C30 and B30, with the former leading to a relaxed trefoil knot and the latter relaxing to a Möbius band, both corresponding to energy minima.

Exploration and Design of Carbon Dot-Based Long Afterglow Materials Using Active Machine Learning and Quantum Chemical Simulations.

Long afterglow materials based on carbon dots (CDs) have attracted extensive attention in the field of optics due to their low cost and nontoxic properties. However, the targeted synthesis of specific properties of complex and unknown structures such as CDs remains a daunting challenge. In this study, the powerful nonlinear fitting ability of machine learning was used to explore the afterglow properties of CDs. The XGBoost algorithm demonstrates high prediction accuracy in determining the optimal excitation wavelength, optimal emission wavelength, and afterglow lifetime. Using Bayesian optimization, we screened and synthesized the CDs-based long afterglow materials with the longest lifetime reported so far by a one-step microwave method. By combining quantum chemical calculations with experimental data, we revealed the structure-function relationship between CDs and their precursors through electron-hole analysis. These results show that machine learning can establish nonlinear correlations between precursors and materials with unknown structures, clarify their intrinsic relationships, simplify the material design process, and thus accelerate the development of advanced materials.