Van Der Waals Interactions Research Articles

Deposition kinetics and adhesion behavior of polydopamine-based capsules on cellulose fibrous substrates

Polydopamine (PDA)-based capsules have been broadly used to functionalize cellulose-based fabrics owing to their enhanced adhesion properties. However, the deposition kinetics and adhesion behavior of PDA-based capsules on the fabrics remain understudied. In this work, the sizes, concentrations, and deposition time of PDA particles, as well as the electrostatic force between PDA particles and the fabrics were investigated to study the deposition kinetics and adhesion behavior of PDA particles on Lyocell fibers. The introduction of electrostatic interaction significantly enhanced both the deposition amount and the uniformity of PDA particles onto the fiber surface. The deposition kinetics of PDA particles on the fibers could be accurately described using a modified collision model, with the coverage of PDA particles conforming to a monolayer deposition pattern. The adhesion behavior of PDA particles was investigated by molecular dynamics simulation and isothermal titration calorimetry. The results indicated the driving forces during the deposition process were mainly hydrogen bonds, electrostatic force and van der Waals force. The van der Waals force was increased by around 106 %, and electrostatic force was even increased by approximately 201 % after the fiber cationization. This study provided a theoretical foundation for achieving controllable and quantitative surface functionalization of cellulose fibrous substrates.

Interaction between Halogenated Phenols and Thyroxine‐Binding Protein: A Multispectral and Computational Approach

AbstractThe aim of this study was to understand the interaction between transthyretin (TTR) and halogenated phenols (HPs) including 2,4‐dichlorophenol (DCP), 2,4,6‐trichlorophenol (TCP), pentachlorophenol (PCP), 2‐bromophenol (2‐BP), 2,4‐dibromophenol (DBP) and 2,4,6‐tribromophenol (TBP). Computer simulation and multi‐spectroscopy techniques were used to investigate the interaction. The fluorescence of TTR was found to be quenched through static quenching and non‐radiative energy transfer by HPs, suggesting that the binding process between HPs and TTR was primarily influenced by van der Waals forces and hydrogen bonds. ANS substitution experiments indicated that HPs interacted with TTR at the T4 binding site. Three‐dimensional fluorescence spectra and Fourier transform infrared spectroscopy were used to investigate the conformational and microenvironmental changes of TTR resulting from the interactions with HPs. Additionally, molecular docking and reduced density gradient analysis were used to identify the specific residues and binding forces involved in the interaction between HPs and TTR binding sites. The findings were subsequently validated through quantum chemical analysis. This research integrates state‐of‐the‐art multispectral analytical methodologies with sophisticated computational modeling to introduce an innovative approach for dissecting the interactions between halogenated phenols (HPs) and transthyretin (TTR). This methodology offers a novel avenue for investigating the molecular interplay between HPs and TTR, thereby providing critical insights that are instrumental in assessing the latent toxicity of these compounds.

Chemical modification of hyaluronan oligosaccharides differentially modulates hyaluronan–hyaladherin interactions

The glycosaminoglycan hyaluronan (HA) is a ubiquitous, nonsulfated polysaccharide with diverse biological roles mediated through its interactions with HA-binding proteins (HABPs). Most HABPs belong to the Link module superfamily, including the major HA receptor, CD44, and secreted protein TSG-6, which catalyzes the covalent transfer of heavy chains from inter-α-inhibitor onto HA. The structures of the HA-binding domains (HABDs) of CD44 (HABD_CD44) and TSG-6 (Link_TSG6) have been determined and their interactions with HA extensively characterized. The mechanisms of binding are different, with Link_TSG6 interacting with HA primarily via ionic and CH-π interactions, whereas HABD_CD44 binds solely via hydrogen bonds and van der Waals forces. Here, we exploit these differences to generate HA oligosaccharides, chemically modified at their reducing ends, that bind specifically and differentially to these target HABPs. Hexasaccharides (HA6AN) modified with 2- or 3-aminobenzoic acid (HA6-2AA, HA6-3AA) or 2-amino-4-methoxybenzoic acid (HA6-2A4MBA), had increased affinities for Link_TSG6 compared to unmodified HA6AN. These modifications did not increase the affinity for CD44_HABD. A model of HA6-2AA (derived from the solution dynamic 3D structure of HA4-2AA) was docked into the Link_TSG6 structure, providing evidence that the 2AA-carboxyl forms a salt bridge with Arginine-81. These modeling results informed a second series of chemical modifications for HA oligosaccharides, which again showed differential binding to the two proteins. Several modifications to HA4 and HA6 were found to convert the oligosaccharide into substrates for heavy chain transfer, whereas unmodified HA4 and HA6 are not. This study has generated valuable research tools to further understand HAbiology.

Computer-aided design, synthesis, and biological evaluation of 4-chloro-N-(2-oxo-3-(2-pyridin-4-yl)hydrazineylidene)indolin-5yl)benzamide and 1-(4-bromobenzyl)-5-indoline-2,3-dione against SARS-CoV-2 spike/ACE2

The emergence of the severe acute respiratory syndrome 2 (SARS-CoV-2) as a global threat has driven the urgent need for the identification of bioactive molecules capable of controlling or completely eradicating this virus. Our group has been investigating isatin hybrids that block the binding of the human angiotensin-converting enzyme 2 (ACE2) and the viral spike protein. This work describes the synthesis and biological evaluation of two derivatives of isatin (indol-2,3-dione) based on a computational approach. Isatin, a secondary metabolite of tryptophan, has been used as the core structure and is a versatile and favorable precursor and as a privileged scaffold against this enzyme complex. The new compound scaffolds AVS-01 and AVS-02 were designed by modifications at the C-3 and N-1 positions, respectively, according to the various reagents available in our lab. Molecular docking of the designed compounds was used to explore their interactions with the target protein complex. The two designed compound scaffolds shown in this article showed quite distinct docking glide scores (GScore = −3.657 and −4.534 for AVS-01 and AVS-02, respectively). Several analogs were synthesized and tested in the quest to find a plausible scaffold for further synthesis. While compound AVS-02 showed inhibition of spike/ACE2 binding with an IC50 value of 8.8 µM, the reference compound hopeaphenol inhibited the interaction with an IC50 of 0.3 µM. Compound AVS-01 rather showed no inhibition of the SARS-CoV-2 spike/host ACE2 interaction with an IC50 > 32 µM. An estimation of their binding free energy (ΔGbind), and free energy of solvation (ΔGsolv) MM-GBSA calculations was carried out to re-evaluate the affinity to the target protein to gain further insights into the observed activity and non-activity. MM-GBSA calculation showed that ΔGbind = −35.91 kcal/mol and-25.32 kcal/mol for AVS-01 and AVS-02, respectively, and ΔGsolv = 25.56 kcal/mol and 16.92 kcal/mol for AVS-01 and AVS-02, respectively. This leads to the conclusion that the N-1 position of the indole-2,3-dione moiety favors the blockage of SARS-CoV-2 spike/ACE2 interactions compared to the C-3 position. Analysis of GScores, per-residue interaction energies, and free energies of binding and solvation showed that van der Waals interactions should favor the binding towards the spike/ACE2 complex.

Calcium oxide adsorption of gas phase PCDD/Fs and its impact on the adsorption properties of activated carbon

Calcium oxide (CaO), utilized in semi-dry/dry desulfurization systems at municipal solid waste incineration (MSWI) plants, demonstrates some capability to remove polychlorinated dibenzo-p-dioxins and dibenzofurans (PCDD/Fs). This study assessed the gas-phase PCDD/F removal performance of CaO, activated carbon (AC) and CaO-AC mixtures. Alone, CaO achieved removal efficiencies of only 31.9% for mass and 50.8% for I-TEQ concentration. However, CaO-AC mixtures exhibited significantly higher efficiencies, reaching 96.0% and 92.5% for mass and I-TEQ concentrations, respectively, surpassing those of AC alone, which were 74.7% and 58.5%. BET analysis indicated that CaO's limited surface area and pore structure are major constraints on its adsorption performance. Density functional theory (DFT) calculations revealed that the π-π electron donor-acceptor (EDA) interaction enhances the adsorption between AC and PCDD/F, with adsorption energies ranging from −1.02 to −1.24 eV. Additionally, the induced dipole interactions between CaO and PCDD/F contribute to adsorption energies ranging from −1.13 to −1.43 eV. Moreover, with increasing chlorination levels, PCDD/F molecules are more predisposed to accept electron transfers from the surfaces of AC or CaO, thereby facilitating adsorption. The calculation for mixed AC and CaO showed that CaO modifies AC's properties, enhancing its ability to adsorb gas phase PCDD/Fs, with the higher adsorption energy and more electrons transfer, aligning with gas phase PCDD/Fs adsorption experiments. This study provides a comprehensive understanding of how CaO influences the PCDD/F adsorption performance of AC.

Self-Scrolling of a Graphyne Ribbon Near a CNT in Multiphysical Environments.

Graphyne nanoscrolls (GNSs) have attracted significant research interest because of their wide-ranging applications. However, the production of GNSs via a self-scrolling approach is environment dependent. Here, molecular dynamics simulations are conducted to evaluate the self-scrolling behavior of an α-graphyne (α-GY) ribbon on a carbon nanotube (CNT) within various multiphysical environments, accounting for the interactions among temperature, electric field, and argon gas. The results demonstrate that the fabrication of an α-GNS lies in the interplay of van der Waals (vdW) forces among the components in a vacuum. Notably, the α-GY ribbon is easier to scroll onto a thicker CNT. The electric field attenuates the vdWinteraction, necessitating thicker CNTs for successful self-scrolling under a stronger electric field. In argon, both the vdW interaction and nanoscale pore contribute to the overlap formation. At 300 K, increasing argon density prolongs the time required for α-GNS formation, with self-scrolling failing beyond a critical gas density threshold. Moreover, the self-scrolling becomes easier at higher temperatures. In multiphysical environments, the interplay between the electric field and the gas density dictates the self-scrolling at low temperatures. Finally, reasonable suggestions are given for successful self-scrolling. The conclusions offer valuable insights for the practical fabrication of α-GNS.

Measuring interfacial thermal resistance across carbon nanotubes with in-situ electron microscopy: Unexpected reduction upon detachment and two orders of magnitude variations across diverse morphologies

The dynamic mechanical processes can notably impact the van der Waals (vdW) interaction at nanoscale contact interface and further interfacial thermal transport, but the experimental study is challenging. Here, by integrating a movable nanoprobe within an electron microscope, we dynamically adjusted the contact and detachment processes of vdW contact between two carbon nanotubes (CNTs), while measuring the thermal contact resistance (TCR) in situ with a nanofabricated thermal sensor. The TCR was found to span approximately two orders of magnitude at the moments when two CNTs just came into contact or detached. Surprisingly, during the initial stage of detachment, we observed that TCR unexpectedly further decreased by 65% instead of increasing. This decrease is attributed to the subtle alteration of exact contact interface in the circumferential direction, induced by the real-time observed rotation during the detachment process. A two-order magnitude difference in TCR for the diverse morphologies in static equilibrium between the same pair of CNTs due to the non-uniformity of the CNT surface structures can also support it. Our work provides valuable insights for dynamically modulating nanoscale interfacial thermal transport in various applications.

Iridoid glycosides from noni (Morinda citrifolia L.) fruit pomace: A novel booster strategy for its extraction and will its α-glucosidase inhibitory be increased by acetylation?

Iridoid glycosides (IGs) are secondary metabolites found in plants such as the noni plant (Morinda citrifolia L.), known for their diverse biological activities and potential health benefits. Herein, we screened fifteen natural deep eutectic solvents (NADES) and two conventional solvents (CS, 70% (V/V) methanol and 70% (V/V) ethanol) for extraction of IGs from noni fruit pomace. Our findings indicate that non-acidic NADES promote IG extraction. Glycerol/glycine combined with β-cyclodextrin was selected, and a molecular simulation was performed to elucidate the interaction between NADES components and IGs. Further, the structure-activity relationship and interaction mechanisms of IGs with α-glucosidase were investigated using multispectral and molecular docking tools. The results demonstrated that deacetylation of the B-ring's C-10 improved the inhibitory potential of IGs. Deacetylation produces hydrophobic contacts, which enhance the inhibitory effect of deacetylasperulosidic acid on α-glucosides. Additionally, hydrogen bonds and van der Waals forces drive the formation of non-covalent complexes between IGs and enzymes.

MoS2/SnS heterostructure composite for high-performance lithium-ion battery anodes

Layered metal sulfides are potential anode materials for lithium-ion batteries (LIBs) because their unique structure makes them suitable for Li+ de-intercalation. As a typical 2D layered material, MoS2 is a potential anode material for LIBs due to the weak van der Waals forces between the layers, which facilitates the de-intercalation of Li+ and supports multiple Li+. However, when MoS2 is used as anodes for LIBs material, rapid capacity decay hinders the application. Coupling two different materials to form a heterogeneous structure is an effective way to solve the above problems. In this work, one-pot hydrothermal method is proposed to construct MoS2/SnS heterostructure composites. The electrochemical properties are significantly enhanced, which could be attributed to the presence of heterogeneous structures, leading to increase the electrode charge transfer rate and interfacial reaction kinetics. The results show that the discharge capacity of the MoS2/SnS-1.5 electrode is about 1492.1 mAh/g at 500 mA/g. Furthermore, assembled MoS2@SnS-1.5||LiCoO2 full cell displays a high discharge capacity of 226.1 mAh/g after 50 cycles at 500 mA/g. This facile method provides the application value of layered metal sulfides as LIBs anode materials.

Crystal structure of (1,4,7,10,13,16-hexa-oxa-cycloocta-decane-κ6 O)potassium-μ-oxalato-tri-phenylstannate(IV), the first reported 18-crown-6-stabilized potassium salt of tri-phenyl-oxalatostannate.

The title complex, (1,4,7,10,13,16-hexa-oxa-cyclo-octa-decane-1κ6 O)(μ-oxalato-1κ2 O 1,O 2:2κ2 O 1',O 2')triphenyl-2κ3 C-potassium(I)tin(IV), [KSn(C6H5)3(C2O4)(C12H24O6)] or K[18-Crown-6][(C6H5)3SnO4C2], was synthesized. The complex consists of a potassium cation coordinated to the six oxygen atoms of a crown ether mol-ecule and the two oxygen atoms of the oxalatotri-phenyl-stannate anion. It crystallizes in the monoclinic crystal system within the space group P21. The tin atom is coordinated by one chelating oxalate ligand and three phenyl groups, forming a cis-trigonal-bipyramidal geometry around the tin atom. The cations and anions form ion pairs, linked through carbonyl coordination to the potassium atoms. The crystal structure features C-H⋯O hydrogen bonds between the oxygen atoms of the oxalate group and the hydrogen atoms of the phenyl groups, resulting in an infinite chain structure extending along a-axis direction. The primary inter-chain inter-actions are van der Waals forces.

Revisiting legume lectins: Structural organization and carbohydrate-binding properties

Legume lectins are a diverse family of carbohydrate-binding proteins that share significant similarities in their primary, secondary, and tertiary structures, yet exhibit remarkable variability in their quaternary structures and carbohydrate-binding specificities. The tertiary structure of legume lectins, characterized by a conserved β-sandwich fold, provides the scaffold for the formation of a carbohydrate-recognition domain (CRD) responsible for ligand binding. The structural basis for the binding is similar between members of the family, with key residues interacting with the sugar through hydrogen bonds, hydrophobic interactions, and van der Waals forces. Variability in substructures and residues within the CRD are responsible for the large array of specificities and enable legume lectins to recognize diverse sugar structures, while maintaining a consistent structural fold. Therefore, legume lectins can be classified into several specificity groups based on their preferred ligands, including mannose/glucose-specific, N-acetyl-d-galactosamine/galactose-specific, N-acetyl-d-glucosamine-specific, l-fucose-specific, and α-2,3 sialic acid-specific lectins. In this context, this review examined the structural aspects and carbohydrate-binding properties of representative legume lectins and their specific ligands in detail. Understanding the structure/binding relationships of lectins continues to provide valuable insights into their biological roles, while also assisting in the potential applications of these proteins in glycobiology, diagnostics, and therapeutics.

A Polarizable QM/MM Model That Combines the State-Averaged CASSCF and AMOEBA Force Field for Photoreactions in Proteins.

This study presents the polarizable quantum mechanics/molecular mechanics (QM/MM) embedding of the state-averaged complete active space self-consistent field (SA-CASSCF) in the atomic multipole optimized energetics for biomolecular applications (AMOEBA) force field for the purpose of studying photoreactions in protein environments. We describe two extensions of our previous work that combine SA-CASSCF with AMOEBA water models, allowing it to be generalized to AMOEBA models for proteins and other macromolecules. First, we discuss how our QM/MM model accounts for the discrepancy between the direct and polarization electric fields that arises in the AMOEBA description of intramolecular polarization. A second improvement is the incorporation of link atom schemes to treat instances in which the QM/MM boundary goes through covalent bonds. A single-link atom scheme and double-link atom scheme are considered in this work, and we will discuss how electrostatic interaction, van der Waals interaction, and various kinds of valence terms are treated across the boundary. To test the accuracy of the link atom scheme, we will compare QM/MM with full QM calculations and study how the errors in ground state properties, excited state properties, and excitation energies change when tuning the parameters in the link atom scheme. We will also test the new SA-CASSCF/AMOEBA method on an elementary reaction step in NanoLuc, an artificial bioluminescence luciferase. We will show how the reaction mechanism is different when calculated in the gas phase, in polarizable continuum medium (PCM), versus in protein AMOEBA models.

Simultaneous desulfurization and dearomatization of simulated straight-run diesel with novel green DBN-based ionic liquids

Given the surplus of diesel fuel in China and the extensive utilization of renewable energy sources, there is a growing inclination to eliminate organic sulphur and aromatic hydrocarbons from diesel fuel for its application as high-quality ethylene cracking feedstock. In this study, a series of 1,5-diazabicyclo[4.3.0]non-5-ene (DBN)-based ionic liquids with [DBNH]+ as the cation and imidazole as the anion were designed and synthesized for the simultaneous desulfurization and dearomatization of straight-run diesel fuel. Considering factors such as extractant stability, residue content in oil, and separation performance, [DBNH][Tr], exhibiting excellent performance characteristics, was screened as the optimal extractant. Following three-stage cross-flow extraction with an extractant/oil ratio of 3:1 at 30 °C, complete removals of sulfides (benzothiophene) and polycyclic aromatic hydrocarbons (1-methylnaphthalene) were achieved while saturated alkanes reached up to 95.8 wt%, making it suitable for ethylene cracking applications. The interaction mechanisms between ionic liquids and oil components were revealed by atoms in molecules (AIM) topology analysis, independent gradient model based on Hirshfeld partition (IGMH) analysis, and symmetric adaptive perturbation theory energy decomposition techniques, revealing that dispersion-dominated van der Waals (VDW) forces primarily govern interactions due to π-π stacking.

Exploring protein-berberine interactions via molecular dynamics and MM/GBSA calculations

Structural modification on berberine has garnered considerable attention among medicinal chemists as a means to enhance its therapeutic potential. The dissection of macrobiomolecule-berberine interactions is pivotal for guiding such modifications. In this study, four diverse crystal complexes of protein-berberine were selected, and simulated by molecular dynamics, in which each complex was conducted five times. Subsequently, the interactions of protein-berberine were collected, and analyzed by in-house scripts. Our findings indicated that the four oxygen atoms, namely O15, O16, O17, and O18, actively participated in the formation of hydrogen bonds and water bridges; the carbon atoms within the D and E rings were able to form hydrophobic interactions more than other carbon atoms; the positively charged N7 atom predominantly participated in the formation of cation-π interactions; π-π interactions were prevalent in the A, B, and D rings, with their frequency influenced by the presence of the residues Trp, Tyr, His, and Phe in the binding pocket. In the free energy decomposition analysis, the terms ΔG_Lipo and ΔG_vdW emerged as the most significant contributors to the overall energy, with ΔG_vdW accounting for over 50% of the energy contribution. Notably, the contribution of ΔG_Packing to the free energy was substantially greater than that of ΔG_Hbond, which contributed less than 1%. These insights into molecular interactions provide valuable guidance for the structural modification of berberine, such as site selection of structural modification, group optimization with the improvement of van der Waals and hydrophobic interactions, and the trade-off between hydrogen bonding and π-packing interactions in terms of interaction weights.

Computational Insights for Interactions between nsP2 and nsP3 of CHIKV and Hormones through DFT Computations and Molecular Dynamics Simulations.

The non-structural protein (nsP2 & nsP3) of the Chikungunya virus (CHIKV) is responsible for the transmission of viral infection. The main role of non-structural proteins are involved in the transcription process at an early stage of the infection. In this work, authors have studied the impact of nsP2 and nsP3 of CHIKV on hormones present in the human body using a computational approach. The ten hormones of chemical properties such as 4-Androsterone-2,17-dione, aldosterone, androsterone, corticosterone, cortisol, cortisone, estradiol, estrone, progesterone and testosterone were taken as a potency. From the molecular docking, the binding energy of the complexes is estimated, and cortisone was found to be the highest negative binding energy (-6.57 kcal/mol) with the nsP2 and corticosterone with the nsP3 (-6.47 kcal/mol). This is based on the interactions between hormones and nsP2/nsP3, which are types of noncovalent intermolecular interactions categorized into three types: electrostatic interactions, van der Waals (vdW) interactions, and hydrogen-bonding (H-bonding) interactions. To validate the docking results, additional molecular dynamics simulations and MM-GBSA methods were performed. The change in enthalpy, entropy, and free energy were calculated using MM-GBSA methods. The nsP2 and nsP3 of CHIKV interact strongly with the cortisone and corticosterone with free energy changes of -20.55 & -36.08 kcal/mol, respectively. Methods: The crystal structures of 3TKR and 3GPO proteins of nsP2 and nsP3 were extracted from the RCSB Protein Data Bank. Initially, unnecessary atoms like extra cations or anions and missing explicit hydrogen atoms were removed and added from the native domain of nsP2 and nsP3. The alignment of coordinated in the native domain was performed using Chimera and Notepad++ tools. The molecular docking of protein and ligand was performed usingAutoDock tool; it is essential for the prediction of the orientation of the ligand into the cavity of the target protein based on binding affinity. Based on thermodynamic parameters, MD Simulations were employed to calculate the change in binding free energies of various complexes followed by a change in enthalpy and entropy with time. According to MD production, the CPPTAJ and PTRAJ programs were used to analyse the trajectories, such as dynamic stability (RMSD), residual fluctuation (RMSF), compatibility, and hydrogen bonds of the newly formed complexes. After that, the Density Functional Theory (DFT) were used to calculate the electronic properties of selected molecules by Gaussian 16 on applying the B3LYP method with the 6-311G (d, p) basis set.

Deterministic grayscale nanotopography to engineer mobilities in strained MoS2 FETs

Field-effect transistors (FETs) based on two-dimensional materials (2DMs) with atomically thin channels have emerged as a promising platform for beyond-silicon electronics. However, low carrier mobility in 2DM transistors driven by phonon scattering remains a critical challenge. To address this issue, we propose the controlled introduction of localized tensile strain as an effective means to inhibit electron-phonon scattering in 2DM. Strain is achieved by conformally adhering the 2DM via van der Waals forces to a dielectric layer previously nanoengineered with a gray-tone topography. Our results show that monolayer MoS2 FETs under tensile strain achieve an 8-fold increase in on-state current, reaching mobilities of 185 cm²/Vs at room temperature, in good agreement with theoretical calculations. The present work on nanotopographic grayscale surface engineering and the use of high-quality dielectric materials has the potential to find application in the nanofabrication of photonic and nanoelectronic devices.

Mechanical strain effect on the optoelectronic properties and photocatalysis applications of layered AlN/GaN nanoheterostructure.

The aim of this work is to use first principles calculations to examine the effects of different mechanical strains on the optoelectronic and photocatalytic capabilities of the 2D/2D nanoheterostructure of AlN/GaN. By utilizing the lmBJ (Meta-GGA) and PBEsol (GGA) functional, the bandgap of the nanoheterostructure is calculated and found to be 4.89eV and 3.24eV. Simulated 2D AlN/GaN nanoheterostructure exhibits exceptional optical and electronic characteristics under applied biaxial tensile and compressive strains. The band gap changes from 4.89 to 3.77eV, while the energy gap nature transitions from direct to indirect during tensile strain fluctuations of 0% to 8%. Strain is also found to have a significant effect on the optical absorption peaks. And a 0-8% rise in tensile strain causes the initial absorption peak of the 2D AlN/GaN nanoheterostructure to shift from 4.88 to 4.20eV, which results in a 14% red shift in photon energy for every 2% change in strain. Furthermore, the optimum bandgap and band edge positions of the 2D AlN/GaN nanoheterostructure enable the water redox process to produce hydrogen and oxygen for wide range of pH. Thus, modification via strain may be an effective method for altering the optical as well as electronic characteristics of a 2D AlN/GaN nanoheterostructure, and this study may pave the way for new applications of this material in optoelectronic devices in the future. In the current work, density functional theory is used to explore every attribute of the 2D AlN/GaN nanoheterostructure. To characterize the electronic exchange-correlation, we used the PBEsol functional. In order to prevent any interlayer contact between periodicity of images, a vacuum is produced along the z-direction of approximately 10 Å. To increase the precision of bandgap prediction, the electronic and optical characteristics were computed using the meta-GGA lmBJ functional. To account for interlayer van der Waals interactions, nanoheterostructure computations were performed using the DFT-D3 functional.

Quercetin slow-release system delays starch digestion via inhibiting transporters and enzymes

This study investigates the potential of a quercetin-based emulsion system to moderate starch digestion and manage blood glucose levels, addressing the lack of in vivo research. By enhancing quercetin bioaccessibility and targeting release in the small intestine, the emulsion system demonstrates significant inhibition of starch digestion and glucose spikes through both in vitro and in vivo experiments. The system inhibits α-amylase and α-glucosidase via competitive and mixed inhibition mechanisms, primarily involving hydrogen bonds and van der Waals forces, leading to static fluorescence quenching. Additionally, this system downregulates the protein expression and gene transcription of SGLT1 and GLUT2. These findings offer a novel approach to sustaining glucose equilibrium, providing a valuable foundation for further application of quercetin emulsion in food science.

Computational simulations uncover enantioselective metabolism of chiral triazole fungicides by human CYP450 enzymes: A case study of tebuconazole

Tebuconazole (TEB), a prominent chiral triazole fungicide, has been extensively utilized for plant pathogen control globally. Despite experimental evidence of TEB metabolism in mammals, the enantioselectivity in the biotransformation of R- and S-TEB enantiomers by specific CYP450s remains elusive. In this work, integrated in silico simulations were employed to unveil the binding interactions and enantioselective metabolic fate of TEB enantiomers within human CYP1A2, 2B6, 2E1, and 3A4. Molecular dynamics (MD) simulations clearly delineated the binding specificity of R- and S-TEB to the four CYP450s, crucially determining their differences in metabolic activity and enantioselectivity. The primary driving force for robust ligand binding was identified as van der Waals interactions with CYP450s, particularly involving the hydrophobic residues. Mechanistic insights derived from quantum mechanics/molecular mechanics (QM/MM) calculations established C2-methyl hydroxylation as the predominant route of R-/S-TEB metabolism, while C6-hydroxylation and triazol epoxidation were deemed kinetically infeasible pathways. Specifically, the resulting hydroxy-R-TEB metabolite primarily originates from R-TEB biotransformation by 1A2, 2E1 and 3A4, whereas hydroxy-S-TEB is preferentially produced by 2B6. These findings significantly contribute to our comprehension of the binding specificity and enantioselective metabolic fate of chiral TEB by CYP450s, potentially informing further research on human health risk assessment associated with TEB exposure.

Spectroscopic and computational investigations of isostructural phase transitions in urea 4-carboxyanilinium nitrate having trapped disordered-nitrate ions

Urea 4-carboxyanilinium nitrate (U4-CAN) and its functional groups deuterated counterpart dU4-CAN were studied using infrared vibrational spectroscopy and computational analysis. Using the known frequencies of the parent components the infrared vibrational frequencies of U4-CAN and dU4-CAN were assigned. FTIR study was carried out to understand how the intra-and inter-molecular interactions in the parent components are affected by U4-CAN co-crystal formation. U4-CAN undergoes isostructural phase transition at 359.1 K. Hence FTIR spectra of U4-CAN were also recorded at different temperature in the range 293 K to 368 K. The interesting observation seen with temperature dependent spectra was:(i) the spectral band intensity increased with increasing temperature and (ii) the peak position of almost all bands did not change in the entire temperature range studied. This results corroborate with the reported structural data of U4-CAN were in it is found that the structural phase transition is isostructural. Hence the crystal structure in the range 293 K to 368 K has same space group and differ only in few hydrogen bond interactions. In order to carry out various theoretical calculation of U4-CAN, the crystallographically obtained structure at 293 K was optimized by density functional theory (DFT) with B3LYP/6–311 G basis set. The theoretical calculated vibration spectra were similar to the experimentally obtained FTIR data. The fingerprint plot of U4-CAN obtained using CrystalExplorer 21 software indicated that the most prominent interaction corresponds to the short O···H contact. Noncovalent interaction (NCL) study indicated that the U4-CAN complex has steric, van der Waals and hydrogen bond interactions and the NH⋅⋅⋅⋅⋅O hydrogen bond interaction between NH3+/ NH2 moieties and NO3- was the strongest. From QTAIM calculation the strongest hydrogen bond interaction in U4-CAN complex was for NH.....O and NH.....N interactions.