Search Results (142)

Per- and polyfluoroalkyl substances (PFASs), as a class of “permanent chemicals” with high environmental persistence and bioaccumulation, have attracted much attention. In this study, we focused on the molecular mechanism of the interaction between perfluoroalkyl acids (PFAAs) and peroxisome proliferator-activated receptor δ (PPARδ). Using molecular docking, binding free energy calculation, and structural analysis, we systematically investigated the binding modes, key amino acid residues, and binding energies of 20 structurally diverse PFAAs with PPARδ. The results showed that the binding energies of PFAAs with PPARδ were significantly affected by the molecular weight, the number of hydrogen bond donors, and the melting point of PFAAs. PFAAs with smaller molecular weights and fewer hydrogen bond donors showed stronger binding affinity. The binding sites were concentrated in high-frequency amino acid residues such as TRP-256, ASN-269, and GLY-270, and the interaction forces were dominated by hydrogen and halogen bonds. PFAAs with branched structure of larger molecular weight (e.g., 3m-PFOA, binding energy of −2.92 kcal·mol⁻¹; 3,3m₂-PFOA, binding energy of −2.45 kcal·mol⁻¹) had weaker binding energies than their straight-chain counterparts due to spatial site-blocking effect. In addition, validation group experiments further confirmed the regulation law of binding strength by physicochemical properties. In order to verify the binding stability of the key complexes predicted by molecular docking, and to investigate the dynamic behavior under the conditions of solvation and protein flexibility, molecular dynamics simulations were conducted on PFBA, PFOA, 3,3m₂-PFOA, and PFHxA. The results confirmed the dynamic stability of the binding of the high-affinity ligands selected through docking to PPARδ. Moreover, the influence of molecular weight and branched structure on the binding strength was quantitatively verified from the perspectives of energy and RMSD trajectories. The present study revealed the molecular mechanism of PFAAs interfering with metabolic homeostasis through the PPARδ pathway, providing a theoretical basis for assessing its ecological and health risks. Full article

In order to solve the problems of high volatility and insufficient absorption effect when using chemical by-product washing oil to treat benzene-containing waste gas, this study innovatively proposed a composite solvent screening method based on the solvation free energy (ΔGsol), and reasonably predicted the absorption performance of 26 solvents for benzene. Through theoretical calculation and experimental verification, tetraethylene glycol dimethyl ether (TGDE) was finally determined to be the optimal composite component of washing oil. The absorption efficiency of the composite solvent reached 96.2%, and the regeneration efficiency was stable after 12 cycles with a mass loss of only 2.4%. Quantum computing simulation revealed that the dispersion force is dominant between benzene and the solvent, and TGDE enhances the electrostatic interaction through weak hydrogen bonds. The synergistic effect of the two improves the absorption performance. This study provides theoretical and technical support for the development of efficient and renewable benzene waste gas recovery solvent systems. Full article

In this research, we investigate the interaction between the redox mediator ferrocene carboxylic acid (Fc-COOH) and glucose oxidase (GOD) in order to determine the thermodynamics parameters K_int, ΔG_int, ΔH_int, and ΔS_int using simple UV–visible experiments at different temperatures. Positive values of ΔH_int, ΔS_int, together with a negative value of ΔG_int indicate an entropy-driven hydrophobic interaction typical of spontaneous association processes. The homogeneous electron transfer rate constants between the oxidized organometallic mediator and the reduced enzyme (k_s), along with their activation parameters (ΔG_ET^≠, ΔH_ET^≠ and ΔS_ET^≠), were calculated using data obtained from foot of the wave analysis (FOWA) of cyclic voltammetry experiments performed at variable temperature. According to transition state theory, the obtained parameters indicate a low activation enthalpy that reflects minimal energetic requirements for electron transfer, while the large negative activation entropy suggests the formation of an ordered transition state. The positive activation free energy falls within the expected range for biological electron transfer processes. Variable temperature cyclic voltammetry experiments of ferrocene carboxylic acid (Fc-COOH) were also performed. The obtained ΔG°, ΔH°, and ΔS° parameters indicate strong stabilization of the redox pair, consistent with a small difference in solvation energy. Circular dichroism, UV–vis spectroscopy, and combined CD and UV–Vis Spectroelectrochemistry measurements performed during redox mediation demonstrate that no significant structural alterations occur in either the enzyme or the redox mediator before or during the electron transfer processes. Full article

As demand for high-performance energy storage grows across grid and mobility sectors, multivalent ion batteries (MVIBs) have emerged as promising alternatives to lithium-based systems due to their potential for higher volumetric energy density and material abundance. This review comprehensively examines recent breakthroughs in magnesium, zinc, aluminum, and calcium-based battery chemistries, with a focus on overcoming barriers related to slow ion transport, limited reversibility, and electrode degradation. Advances in aqueous and non-aqueous electrolyte formulations, including solvation shell engineering, interfacial passivation, and dual-zone ion transport, are discussed for their role in improving compatibility and cycling stability. Particular focus is placed on three high-impact innovations: solvation-optimized Mg-ion systems for improved mobility and retention, interface-engineered Zn-ion batteries enabling dendrite-free operation, and sustainable Al-ion technologies targeting grid-scale deployment with eco-friendly electrolytes and recyclable materials. Cross-cutting insights from operando characterization techniques and AI-guided materials discovery are also evaluated for their role in accelerating MVIB development. By integrating fundamental materials innovation with practical system design, multivalent ion batteries offer a compelling path toward next-generation, safer, and more sustainable energy storage platforms. Full article

Background/Objectives: Dihydroquercetin, known for its broad biological activities, is a key component in dietary supplements and functional foods. This study aims to identify its novel pure solid forms, advancing understanding of its physicochemical properties and polymorphism. Methods: Systematic screening, preparation, and characterization efforts identified five solvates: dihydroquercetin monohydrate (1:1, S1 and S2), sesquihydrate (1:1.5, S3), dihydrate (1:2, S4), and ACN solvate (1:1, S5), along with one solvent-free phase (S6). Results: The crystal structures of the five solvates were successfully elucidated for the first time. A comprehensive suite of techniques, including single-crystal and powder X-ray diffraction, DSC, TG, and FT-IR, were employed to characterize the solvates and polymorphs. Hirshfeld surface analysis, void map analysis, intermolecular energy calculations, and energy framework methods were utilized to investigate the characteristics of the solvates. The crystal transformation relationships among these forms were also explored. Conclusions: Results demonstrate that O···H interactions dominate the intermolecular forces, accounting for over 35% of the total interactions. Full article

Microalgae are considered a potential source of fatty acid esters that are suitable for biodiesel production. However, a principal bottleneck in lipids extraction is related to the selection of appropriate solvents in order to obtain an efficient process. In this work, a simple methodology based on Hansen Solubility Parameters (HSP) was developed, aiming to solvent screening towards selective extraction of lipid compounds: main parameters that were considered for an optimum solvent included the partitioning of free fatty acids and other non-desired solutes, e.g., pigments and phospholipids, as well as the minimum water dissolution. The method takes into account the affinity of a candidate solvent with desired and non-desired solutes along with their relative differences. A large number of solvents (>5000) were scanned by this method for their capacity to selectively extract fatty acid esters from microalgae biomass, and hexane proved to be among the optimum solvents. This prediction was supported by the Snyder’s polarity index as well as ab initio quantum mechanical Density Functional Theory (DFT) calculations of the Gibbs free energy of solvation and partition coefficients. Moreover, model validation carried out by liquid–liquid extraction of algal liquor with hexane and other solvents, and measurement of lipids allocation using paper chromatography and spectroscopy. Low lipids yield was observed, while the extract was enriched in fatty acid esters. A critical discussion is provided regarding the low yield ratios and potential implications due to overestimation of lipids content in microalgae. Full article

NOD-like receptor protein 3 (NLRP3) inflammasome is a key mediator of inflammation and a promising therapeutic target. However, the discovery of novel and effective inhibitors of NLRP3 remains limited. A combined docking-based virtual screening (DBVS) and shape-based screening approach was applied to eight traditional Chinese medicine (TCM) databases to identify potential NLRP3 inhibitors. Structural similarity analysis, ADMET prediction, and molecular dynamics (MD) simulations were performed to evaluate structural novelty, pharmacokinetic properties, and binding stability. A total of 25 potential NLRP3 inhibitors were identified, each exhibiting docking scores higher than those of the reference inhibitor XE3. Structural similarity analysis revealed that the screened compounds exhibited low similarity to previously reported NLRP3 inhibitors, demonstrating their structural novelty. ADMET evaluation indicated that compounds C2, C3, and C4 exhibited favorable physicochemical and pharmacokinetic properties. Molecular dynamics (MD) simulations demonstrated that the complexes of compounds C2, C3, and C4 with NLRP3 remained stable throughout the simulations, exhibiting limited backbone fluctuations and compact conformations, as indicated by Rg values of approximately 6 Å. Solvent-accessible surface area (SASA) and polar surface area (PSA) analyses suggested that compounds C3 and C4 were tightly solvated and maintained favorable membrane permeability. Notably, binding free energy calculations revealed that all three compounds exhibited stronger binding than XE3, with compound C3 showing the most favorable energy (–48.81 ± 3.89 kcal/mol), indicating a highly stable and energetically preferred interaction with NLRP3. This study identified promising TCM-derived compounds as potential NLRP3 inhibitors, offering new directions for anti-inflammatory drug development. Full article

Understanding how solvents influence the luminescence behavior of Cu(I) complexes is crucial for designing advanced optical sensors. This study reports the synthesis, structures and photophysical investigation of an 8-hydroxyquinoline-functionalized 1H-imidazo[4,5-f][1,10]phenanthroline ligand, ipqH₂, and its four Cu(I) complexes with diphosphine co-ligands. Photoluminescence studies demonstrated distinct solvent-dependent excited-state mechanisms. In DMSO/alcohol mixtures, free ipqH₂ exhibited excited-state proton transfer (ESPT) and enol-keto tautomerization, producing dual emission at about 447 and 560 nm, while the complexes resisted ESPT due to hydrogen bond blocking by PF₆⁻ anions and Cu(I) coordination. In DMSO/H₂O, aggregation-caused quenching (ACQ) and high-energy O–H vibrational quenching dominated, but complexes 1 and 2 showed a significant red-shifted emission (569–574 nm) with high water content due to solvent-stabilized intra-ligand charge transfer and metal-to-ligand charge transfer ((IL+ML)CT) states. In DMSO/DMF, hydrogen bond competition and solvation-shell reorganization led to distinct responses: complexes 1 and 3, with flexible bis[(2-diphenylphosphino)phenyl]ether (POP) ligands, displayed peak splitting and (IL + ML)CT redshift emission (501 ⟶ 530 nm), whereas complexes 2 and 4, with rigid 9,9-dimethyl-4,5-bis(diphenylphosphino)-9H-xanthene (xantphos), showed weaker responses. The flexibility of the diphosphine ligand dictated DMF sensitivity, while the coordination, the hydrogen bonds between PF₆⁻ anions and ipqH₂, and water solubility governed the alcohol/water responses. This work elucidates the multifaceted solvent-responsive mechanisms in Cu(I) complexes, facilitating the design of solvent-discriminative luminescent sensors. Full article

Aqueous zinc-ion batteries (AZIBs) have attracted significant attention for large-scale energy storage owing to their high safety, low cost, and environmental friendliness. However, issues such as dendrite growth, hydrogen evolution, and corrosion at the zinc anode severely limit their cycling stability. In this study, a “synergistic solvation shell–interfacial adsorption regulation” strategy is proposed, employing potassium gluconate (KG) and dimethyl sulfoxide (DMSO) as composite additives to achieve highly reversible zinc anodes. DMSO integrates into the Zn²⁺ solvation shell, weakening Zn²⁺-H₂O interactions and suppressing the activity of free water, while gluconate anions preferentially adsorb onto the zinc anode surface, inducing the formation of a robust solid electrolyte interphase (SEI) enriched in Zn(OH)₂ and ZnCO₃. Nuclear magnetic resonance(NMR), Raman, and Fourier transform infrared spectroscopy(FTIR) analyses confirm the reconstruction of the solvation structure and reduction in water activity, and X-ray photoelectron spectroscopy(XPS) verifies the formation of the SEI layer. Benefiting from this strategy, Zn||Zn symmetric cells exhibit stable cycling for over 1800 h at 1 mA cm⁻² and 1 mAh cm⁻², and Zn||Cu cells achieve an average coulombic efficiency of 96.39%, along with pronounced suppression of the hydrogen evolution reaction. This work provides a new paradigm for the design of low-cost and high-performance electrolyte additives. Full article

A new method is presented for the estimation of contributions to solvation free energy from dispersion, polar, and hydrogen-bonding (HB) intermolecular interactions. COSMO-type quantum chemical solvation calculations are used for the development of four new molecular descriptors of solutes for their electrostatic interactions. The new model needs one to three solvent-specific parameters for the prediction of solvation free energies. The widely used Abraham’s LSER model is used for providing the reference solvation free energy data for the determination of the solvent-specific parameters. Extensive calculations in 80 solvent systems have verified the good performance of the model. The very same molecular descriptors are used for the calculation of solvation enthalpies. The advantages of the present model over Abraham’s LSER model are discussed along with the complementary character of the two models. Enthalpy and free-energy solvation information for pure solvents is translated into partial solvation parameters (PSP) analogous to the widely used Hansen solubility parameters and enlarge significantly their range of applications. The potential and the perspectives of the new approach for further molecular thermodynamic developments are discussed. Full article

Electrons localized by water molecules are known as hydrated electrons. The composition of the aqueous environment determines their state and behavior. In this experimental and theoretical work, hydrated electrons were formed in aqueous solutions upon high-energy electron impact, and the dependence of their characteristics on the presence of nanobubbles generated during vibrational treatment was investigated. To explain the results, quantum chemical simulations were carried out, and diverse possible kinetic schemes were considered. Absorbance of deionized water and NaCl aqueous solution was measured at a wavelength of 600 nm, which falls in the range typical of hydrated electrons. The principal differences in the spectral responses of the samples were discovered depending on whether they were preliminarily subjected to repeated vigorous shaking or not. Vigorous shaking caused a noticeable increase in both the integral and maximum absorbance, and the absorbance decay was significantly slower. The effects observed in the vibrationally treated aqueous samples were found to be explained only in the framework of a kinetic scheme that assumes the repeated solvation of electrons, which are transferred from a localized to a delocalized (free) state upon the energy absorption. This repeated solvation is possible only when the secondary electrons are localized on the inner surfaces of the boundary hydration shells of nanobubbles, which are formed in the process of shaking. Thus, nanobubbles substantially change the apparent gross lifetime and properties of hydrated electrons, and these changes, in turn, can indicate the presence of nanobubbles in water and aqueous solutions. Full article

The aggregation behavior of typical aromatic pollutants in the n-octanol phase and its influence on the n-octanol–air partition coefficient (K_OA) were investigated using molecular dynamics simulation. The aggregate proportion of selected aromatic pollutants gradually increased with increasing simulation time and then reached a dynamic equilibrium state. It is interesting to find that the higher the concentration of aromatic pollutants, the more aggregates formed in the n-octanol phase. Log K_OA values of these aromatic pollutants were subsequently estimated based on the percentages of aggregates and the solvation free energy from the gas phase to the n-octanol phase. The log K_OA values were also found to gradually increase with increasing concentration. Therefore, the effect of concentration on K_OA should be taken into consideration during the analysis of the environmental behavior and transport of these aromatic pollutants. In addition, it was found that π–π interactions drive the formation of different numbers of aggregates for different aromatic pollutants, a phenomenon that affects the K_OA values of aromatic pollutants. The above results shed some light on the effects of aggregates and concentration on the partition behavior of aromatic pollutants and provide a theoretical basis for the correction of K_OA of aromatic pollutants in the environment. Full article

Background/Objectives: Chloroquine (CQ) and hydroxychloroquine (HCQ) have been the subject of debate in the treatment of COVID-19 due to the lack of conclusive evidence regarding their efficacy and safety. Our study aims to investigate the molecular interaction between the enantiomers of CQ and HCQ with angiotensin-converting enzyme 2 (ACE2), focusing on the binding mechanism, affinity, and selectivity. Methods: We used in silico methods, including molecular docking, molecular dynamics, and binding free energy calculations using the MM-PBSA method, to evaluate the interaction between the enantiomers of CQ and HCQ with ACE2. Results: We identified three main interaction sites on ACE2 (α, β, and γ) with distinct characteristics based on the pocket size, hydrophilic/hydrophobic characteristics, and affinity energy. We observed that protonation states and ionic strength significantly influence the binding affinity and specificity. In particular, the selectivity of the β-site, characterized by its smaller size and hydrophilic residues, is preferential for species with the (R) configuration, whereas the α and γ binding sites, with a larger size and amphiphilic residues, have greater affinity for the (S) enantiomer of CQ and HCQ. Furthermore, ionic strength can affect ligand binding by modulating electrostatic interactions, molecular conformation, solvation, and the stability of the complex. Conclusions: Our findings reveal that protonation states and the ionic strength substantially impact the binding affinity and specificity, regulated by spatial and polar–electrostatic complementarity, as well as hydrophobic contributions. These results suggest that understanding the interaction between CQ and HCQ enantiomers with ACE2 could be useful for the design of novel therapies against COVID-19. Full article

In this study, the chemopreventive effects of rosmarinic acid (RA), a major phenolic acid of the plant Rosmarinus officinalis L., against the carcinogenic naturally occurring mycotoxin aflatoxin B1 (AFB1) were investigated using both in silico and in vitro approaches. The in silico investigation of the chemical reactions between rosmarinic acid and the carcinogenic metabolite of AFB1, aflatoxin B1 exo-8,9-epoxide (AFBO), was conducted by activation free energies calculations with DFT functionals M11-L and MN12-L, in conjunction with the 6-311++G(d,p) flexible basis set and implicit solvation model density (SMD), according to a newly developed quantum mechanics-based protocol for the evaluation of carcinogen scavenging activity (QM-CSA). Following the computational analyses, the chemoprotective effects of RA were further studied in vitro in human hepatocellular carcinoma HepG2 cells by analyzing its influence on AFB1-induced genotoxicity using a comet assay, γH2AX, and p-H3, while its impact on cell proliferation and cell cycle modulation was assessed using flow cytometry. Our computational results revealed that the activation free energy required for the reaction of RA with AFBO (14.86 kcal/mol) is significantly lower than the activation free energy for the competing reaction of AFBO with guanine (16.88 kcal/mol), which indicates that RA acts as an efficient natural scavenger of AFBO, potentially preventing AFB1-specific DNA adduct formation. The chemoprotective activity of RA was confirmed through in vitro experiments, which demonstrated a statistically significant (p < 0.05) reduction in AFB1-induced single- and double-strand breaks in HepG2 cells exposed to a mixture of AFB1 and RA at non-cytotoxic concentrations. In addition, RA reversed the AFB1-induced reduction in cell proliferation. Full article

Free energy landscapes are pivotal for understanding molecular interactions in solution, yet their reconstruction in complex systems remains computationally demanding. In this study, we integrated Gaussian process regression (GPR) with well-tempered metadynamics (WT-MTD) to efficiently map the free energy landscape of the Mg²⁺-Cl⁻ ion pairing in an aqueous solution, a system central to biological processes such as magnesium hydration and ligand exchange. We compared traditional umbrella sampling (WHAM) with WT-MTD-derived free energy profiles, identifying critical discrepancies attributed to insufficient sampling in barrier regions. WT-MTD captures two distinct minima corresponding to the contact ion pair (CIP: 0.23 nm) and solvent-separated ion pair (SSIP: 0.47 nm) configurations, consistent with previous computational and experimental studies. GPR, trained on free energy gradients from WT-MTD trajectories, reconstructs smooth landscapes with small datasets (5000 points) while reducing computational costs via grid sparsification. Our results demonstrate that GPR hyperparameters can be optimized based on the insights from WT-MTD simulations, enabling accurate reconstructions even in sparse data regimes. This approach bridges computational efficiency with molecular-level resolution, offering a robust framework for studying ion solvation dynamics and hydration effects in complex systems, where this work is the first application of GPR in ionic solvation environments. The methodology’s scalability to multidimensional landscapes further underscores its potential for advancing molecular simulations in biochemistry and material science. Full article