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Krishnapriya VU, Suresh CH. Unraveling pnicogen bonding cooperativity: Insights from molecular electrostatic potential analysis. J Comput Chem 2024; 45:461-475. [PMID: 37950586 DOI: 10.1002/jcc.27256] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2023] [Revised: 10/18/2023] [Accepted: 11/01/2023] [Indexed: 11/12/2023]
Abstract
A theoretical investigation on the cooperativity of a series of binary, ternary, and quaternary complexes interconnected by pnicogen bonds has been conducted using calculations at the M06-2X/aug-cc-pVTZ level of density functional theory. By measuring changes in the molecular electrostatic potential (MESP) at the nucleus of interacting atoms in all of the complexes, it is possible to quantify the substantial reorganization of the electron density triggered by the formation of pnicogen bonds. The positive change in MESP, indicating a loss of electron density from the donor molecule in a dimer, facilitates the acceptance of electron density from a third molecule, resulting in the formation of a ternary complex with a stronger pnicogen bond compared to the one present in the binary complex. Similarly, the acceptor molecule in a dimer with a negative change in MESP showed an enhanced tendency to donate electron density to an electron-deficient third molecule. The MESP analysis provided valuable insights into the donor/acceptor characteristics of pnicogen bonds within the quaternary complexes. The proposed MESP hypotheses are consistent with the positive cooperativity observed in the pnicogen-bonded clusters. To quantify the changes in MESP, both at the donor atom (ΔVdonor ) and the acceptor atom (ΔVacceptor ), for all pnicogen bonds in the cluster, the total change in MESP (ΔΔVn ) was measured as ΔΔVn = ∑(ΔVdonor )-∑(ΔVacceptor ). Remarkably, ΔΔVn exhibited a strong linear relationship with the sum of the bond energies of the pnicogen bonds in the cluster. This establishes the MESP analysis as a robust approach for understanding the strength and cooperative behavior of pnicogen-bonded clusters. Additionally, the MESP features provided clear evidence of pnicogen bond formation, further supporting the reliability of this approach.
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Guo X, Zhou Q, Wang C, Cao Y, Yang X, Wei S, Xu W, Chen S, Zhu K, Zhang P, Shou H, Wang Y, Chimtali PJ, Wu X, Song L, Liu X. Universal Intercalation/Alloying Hybrid Mechanism with -ICOHP Criterion in MAX Toward Steadily Ascending Lithium-Ion Batteries. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2024:e2400099. [PMID: 38507728 DOI: 10.1002/smll.202400099] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/05/2024] [Revised: 02/28/2024] [Indexed: 03/22/2024]
Abstract
Profiting from the unique atomic laminated structure, metallic conductivity, and superior mechanical properties, transition metal carbides and nitrides named MAX phases have shown great potential as anodes in lithium-ion batteries. However, the complexity of MAX configurations poses a challenge. To accelerate such application, a minus integrated crystal orbital Hamilton populations descriptor is innovatively proposed to rapidly evaluate the lithium storage potential of various MAX, along with density functional theory computations. It confirms that surface A-element atoms bound to lithium ions have odds of escaping from MAX. Interestingly, the activated A-element atoms enhance the reversible uptake of lithium ions by MAX anodes through an efficient alloying reaction. As an experimental verification, the charge compensation and SnxLiy phase evolution of designed Zr2SnC MAX with optimized structure is visualized via in situ synchrotron radiation XRD and XAFS technique, which further clarifies the theoretically expected intercalation/alloying hybrid storage mechanism. Notably, Zr2SnC electrodes achieve remarkably 219.8% negative capacity attenuation over 3200 cycles at 1 A g-1. In principle, this work provides a reference for the design and development of advanced MAX electrodes, which is essential to explore diversified applications of the MAX family in specific energy fields.
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Mikołajczyk M. Nucleophilic Substitution at Phosphorus Centres - Old and Recent Studies and a Final Solution of Mechanistic and Related Stereochemical Problems. Chemistry 2024; 30:e202302974. [PMID: 38116824 DOI: 10.1002/chem.202302974] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2023] [Revised: 12/08/2023] [Accepted: 12/12/2023] [Indexed: 12/21/2023]
Abstract
Among many problems of a fundamental value in the heteroatom chemistry the mechanism and stereochemistry of the nucleophilic substitution reaction at the phosphorus and other heteroatom centres have attracted great attention of phosphorus chemists already in the middle of the last century. This review, which does not have a comprehensive character, summarizes the selected original contributions aimed at solution of the mechanism of SN2-P reaction and its relationship with stereochemistry. The breakthrough in these studies was the Westheimer's concept and his rules which is presented at the beginning of this article. Next, a series of papers is presented where the stereochemistry of the substitution at phosphorus was investigated in cyclic five-, four- and six-membered ring phosphorus compound. The majority of these reactions have been found to occur with retention of the P-configuration. In the third part of this account, the selected examples of substitution reactions at phosphorus in acyclic compounds are discussed. As the results of all the investigations discussed did not allow to undoubtedly ascribe the mechanism (SN2 or A-E) to the investigated reactions, in the last part the SN-P reactions are presented, the mechanism of which has been established by combination of the stereochemical and DFT-studies.
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Wang C, Li Y, Wang Y, Zhang Y, Feng J, An X, Wang R, Xu Y, Cheng X. Removal of sulfonamide antibiotics by non-free radical dominated peroxymonosulfate oxidation catalyzed by cobalt-doped sulfur-containing biochar from sludge. JOURNAL OF HAZARDOUS MATERIALS 2024; 466:133535. [PMID: 38271878 DOI: 10.1016/j.jhazmat.2024.133535] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2023] [Revised: 01/10/2024] [Accepted: 01/13/2024] [Indexed: 01/27/2024]
Abstract
The reuse of activated sludge as a solid waste is severely underutilized due to the limitations of traditional treatment and disposal methods. Given that, the sulfur-containing activated sludge catalyst doped with cobalt (SK-Co(1.0)) was successfully prepared by one-step pyrolysis and calcinated at 850 ℃. The generation of CoSx was successfully characterized by X-ray diffraction (XRD) and X-ray photoelectron spectroscopy (XPS), indicating that the sulfur inside the sludge was the anchoring site for the externally doped cobalt. Cobalt (Ⅱ) (Co2+), as the main adsorption site for peroxymonosulfate(PMS), formed a complex (SK-Co(1.0)-PMS* ) and created the conditions for the generation of surface radicals. The SK-Co(1.0)/PMS system showed high degradation efficiency and apparent rate constants for Sulfamethoxazole (SMX) (91.56% and 0.187 min-1) and Sulfadiazine (SDZ) (90.73% and 0.047 min-1) within 10 min and 30 min, respectively. Three sites of generation of 1O2, which played a dominant role in the degradation of SMX and SDZ in the SK-Co(1.0)/PMS system, were summarized as:sulfur vacancies (SVs), the Co3+/Co2+ cycles promoted by sulfur(S) species, oxygen-containing functional groups (C-O). The degradation mechanisms and pathways had been thoroughly investigated using DFT calculations. In view of this, a new idea for the resource utilization of activated sludge solid waste was provided and a new strategy for wastewater remediation was proposed.
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AlHazmy SM, Zouaghi MO, Al-Hakimi AN, Alorini T, Alhagri IA, Arfaoui Y, Al-Ashwal R, Mansour L, Hamdi N. Synthesis, characterization, optical properties, biological activity and theoretical studies of a 4 nitrobenzylidene) amino) phenyl)imino)methyl)naphthalen-2-ol -based fluorescent Schiff base. Heliyon 2024; 10:e26349. [PMID: 38495175 PMCID: PMC10943314 DOI: 10.1016/j.heliyon.2024.e26349] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2023] [Revised: 02/09/2024] [Accepted: 02/12/2024] [Indexed: 03/19/2024] Open
Abstract
A new Schiff base, 1-(E)-(4-((E) 4nitrobenzylidene) amino) phenyl)imino) methyl)naphthalen-2-ol (4NMN), was prepared from the reaction of p-phenylenediamine with 2-hydroxy-1-naphthaldehyde and 4-nitrobenzaldehyde and characterized with spectroscopic analysis. UV-VIS and NMR. Frontier molecular orbitals, molecular electrostatic potential, and chemical reactivity descriptors of the synthesized compound were studied using molecular modeling methods. The antibacterial and antifungal activities of the Schiff base were studied for its minimum inhibitory concentration. The compound showed a higher effect on yeast than against bacteria. Density functional theory (DFT) calculations were performed to study the mechanism of reaction for the synthesis of 4NMN, and the results were consistent with the experimental findings. 4NMN exhibited moderate antibacterial and antifungal activities and demonstrated higher inhibition potential against different resistant strains compared to the reference drug gentamycin. The absorption and fluorescence spectra of 4NMN were measured in different solvents, and the effect of relative polarity and acidity on the medium was observed. An inner filter effect was observed at high concentrations, and the compound showed considerable fluorescence enhancement with increasing medium viscosity and fluorescence quenching by the addition of traces of Cr1+ and Cu2+. Additionally, molecular docking studies were conducted to investigate the efficiency of antibacterial and antifungal targets.
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Asif TI, Saiduzzaman M, Hossain KM, Shuvo IK, Hasan MN, Ahmad S, Mitro S. Pressure-driven modification of optoelectronic features of ACaCl 3 (A = Cs, Tl) for device applications. Heliyon 2024; 10:e26733. [PMID: 38439822 PMCID: PMC10909730 DOI: 10.1016/j.heliyon.2024.e26733] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/14/2023] [Revised: 02/19/2024] [Accepted: 02/19/2024] [Indexed: 03/06/2024] Open
Abstract
Intending to advance the use of halide-perovskites in technological applications, in this research, we investigate the structural, electronic, optical, and mechanical behavior of metal-halide perovskites ACaCl3 (A = Cs, Tl) through first-principle analysis and assess their potential applications. Due to the applied hydrostatic pressure, the interaction between constituent atoms increases, thereby causing the lattice parameter to decrease. The band structure reveals that band gap nature transits from indirect to direct at elevated pressure. Moreover, at high pressure, the electronic band structure shows a notable band gap contraction from the insulator (>5.0 eV) to the semiconductor region, which makes them promising for electronic applications. The charge density map explores the ionic and covalent characteristics of Cs/Tl-Cl and Ca-Cl under pressured and unpressurized environments. Induced pressure enhances the optical conductivity as well as the optical absorption that moves toward the low-energy region (red shift), making ACaCl3 (A = Cs, Tl) advantageous for optoelectronic applications. Additionally, this study reveals that the mechanical properties of ductility and anisotropy were found to be improved at higher pressures than in ambient conditions. Overall, this study will shed light on the technological applications of lead-free halide perovskites in extreme pressure conditions.
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Hernández B, Coïc YM, Kruglik SG, Sanchez-Cortes S, Ghomi M. The relationship between the tyrosine residue 850-830 cm -1 Raman doublet intensity ratio and the aromatic side chain χ 1 torsion angle. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 308:123681. [PMID: 38039641 DOI: 10.1016/j.saa.2023.123681] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/16/2023] [Accepted: 11/21/2023] [Indexed: 12/03/2023]
Abstract
Tyrosine (Tyr) residue in a peptide chain is characterized by the presence of seven Raman markers, referred to as Yi (i = 1, …, 7), distributed over the middle wavenumber spectral region. Particularly, the changes observed in the relative intensity of Y5 and Y6 markers, appearing as a side by side doublet at ca. 850-830 cm-1, has received a great attention. Primarily assigned to a Fermi-resonance effect between phenol ring planar and nonplanar modes, former density functional theory calculations led us to affiliate the Y5-Y6 doublet to two distinct fundamental modes. Furthermore, despite the previous assumptions, it was evidenced that the reversal of the doublet intensity ratio cannot be solely explained by hydrogen bonding on the phenol hydroxyl group involved in Tyr. Herein, upon analyzing the observed and theoretical data collected from the cationic species of the tripeptide Gly-Tyr-Gly, the crucial effect of the aromatic side chain orientation, especially that of the χ1 torsion angle defined around the CαCβ bond, on the Tyr doublet intensity ratio has been evidenced.
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Michalski J, Stoczewski Z, Roszak S, Kucharska E, Bryndal I, Dymińska L, Lisiecki R, Hanuza J. Conformation of the hydrazo bond in new 2-methyl-3,5-dinitro-6-(2-phenylhydrazinyl)pyridine and its influence on the structural and optic properties - Quantum chemical DFT calculations. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 308:123760. [PMID: 38141502 DOI: 10.1016/j.saa.2023.123760] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/27/2023] [Revised: 11/20/2023] [Accepted: 12/09/2023] [Indexed: 12/25/2023]
Abstract
A new methyl-dinitro-phenylhydrazinyl-pyridine derivative [2-methyl-3,5-dinitro-6-(2-phenylhydrazinyl)pyridine] was synthesised and characterised by means of structural and spectroscopic measurements. The X-ray diffraction studies revealed that the compound crystallises in the centrosymmetric monoclinic space group P21/n, with two symmetry-independent molecules in the asymmetric unit with Z = 8. Hydrazo bridge C-NH-NH-C links two fragments composed of phenyl ring and pyridine unit substituted with methyl and nitro groups. Such a structure was confirmed by 1H and 13C NMR studies as well as IR, Raman, UV-Vis, and emission spectra. The results were analysed using the quantum-chemical DFT calculations. The paper reports the vibrational characteristics and discusses dynamical properties of this moiety. The full set of the normal modes typical of the hydrazo bridge was identified and assigned to respective IR and Raman bands. The results of structural and spectroscopic studies were used to find the dependence between the conformation of the θ-NH-NH-ϕ system and its optic properties. The experimental UV-Vis and emission spectra were discussed in terms of the calculated singlet and triplet states that allowed assigning the unique spectral pattern originating from the electrons of the hydrazo-bridge system.
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Qian W, Yang Y, Liu Z, Zhang J, Song X, Shi N, Xie M, Li B, Ning P. Enhanced absorption of SO 2 from phosphogypsum decomposition by phosphate slurry for phosphoric acid production. JOURNAL OF HAZARDOUS MATERIALS 2024; 465:133431. [PMID: 38185091 DOI: 10.1016/j.jhazmat.2024.133431] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/16/2023] [Revised: 12/21/2023] [Accepted: 01/02/2024] [Indexed: 01/09/2024]
Abstract
Phosphogypsum (PG) is a major industrial by-product of wet process phosphoric acid production, and untreated PG stockpiled on land will cause severe environmental pollution. Thermal treatment of PG is currently the mainstream treatment method PG can be thermally decomposed to produce CaO, and the decomposition process produces large amounts of SO2. In this paper, phosphate slurry was used to absorb SO2 generated during the PG decomposition to produce phosphoric acid. The effects of operating conditions such as pressure, inlet SO2 concentration, and additive content on the desulfurization efficiency, as well as phosphoric acid yield, were investigated. Under the optimal experimental parameters, the desulfurization efficiency was 100% in the first 3 h, and decreased to 67.42% after 5 h, the maximum phosphate concentration in the solution was 1445.92 mg/L. The Density functional theory (DFT) calculations showed that SO2 and O2 adsorbed on the surface of P2O5 underwent to generate SO3, which can react with H2O to produce H2SO4. Moreover, it was found that Fe3+ could enhance the catalytic oxidation process of SO2 and O2 by decreasing the reaction energy barrier. This study should be helpful for the recycling of phosphorus resources.
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Queiroz LHS, Barros RS, de Sousa FF, Lage MR, Sarraguça MC, Ribeiro PRS. Preparation and Characterization of a Rifampicin Coamorphous Material with Tromethamine Coformer: An Experimental-Theoretical Study. Mol Pharm 2024; 21:1272-1284. [PMID: 38361428 DOI: 10.1021/acs.molpharmaceut.3c00947] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/17/2024]
Abstract
Rifampicin (RIF) is an antibiotic used to treat tuberculosis and leprosy. Even though RIF is a market-available drug, it has a low aqueous solubility, hindering its bioavailability. Among the strategies for bioavailability improvement of poorly soluble drugs, coamorphous systems have been revealed as an alternative in the increase of the aqueous solubility of drug systems and at the same time also increasing the amorphous state stability and dissolution rate when compared with the neat drug. In this work, a new coamorphous form from RIF and tromethamine (TRIS) was synthesized by slow evaporation. Structural, electronic, and thermodynamic properties and solvation effects, as well as drug-coformer intermolecular interactions, were studied through density functional theory (DFT) calculations. Powder X-ray diffraction (PXRD) data allowed us to verify the formation of a new coamorphous. In addition, the DFT study indicates a possible intermolecular interaction by hydrogen bonds between the available amino and carbonyl groups of RIF and the hydroxyl and amino groups of TRIS. The theoretical spectra obtained are in good agreement with the experimental data, suggesting the main interactions occurring in the formation of the coamorphous system. PXRD was used to study the physical stability of the coamorphous system under accelerated ICH conditions (40 °C and 75% RH), indicating that the material remained in an amorphous state up to 180 days. The thermogravimetry result of this material showed a good thermal stability up to 153 °C, and differential scanning calorimetry showed that the glass temperature (Tg) was at 70.0 °C. Solubility studies demonstrated an increase in the solubility of RIF by 5.5-fold when compared with its crystalline counterpart. Therefore, this new material presents critical parameters that can be considered in the development of new coamorphous formulations.
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Guthrie JD, Rowell CER, Anyaeche RO, Alzarieni KZ, Kenttämaa HI. Characterization of the degradation products of lignocellulosic biomass by using tandem mass spectrometry experiments, model compounds, and quantum chemical calculations. MASS SPECTROMETRY REVIEWS 2024; 43:369-408. [PMID: 36727592 DOI: 10.1002/mas.21832] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2022] [Revised: 12/27/2022] [Accepted: 12/28/2022] [Indexed: 06/18/2023]
Abstract
Biomass-derived degraded lignin and cellulose serve as possible alternatives to fossil fuels for energy and chemical resources. Fast pyrolysis of lignocellulosic biomass generates bio-oil that needs further refinement. However, as pyrolysis causes massive degradation to lignin and cellulose, this process produces very complex mixtures. The same applies to degradation methods other than fast pyrolysis. The ability to identify the degradation products of lignocellulosic biomass is of great importance to be able to optimize methodologies for the conversion of these mixtures to transportation fuels and valuable chemicals. Studies utilizing tandem mass spectrometry have provided invaluable, molecular-level information regarding the identities of compounds in degraded biomass. This review focuses on the molecular-level characterization of fast pyrolysis and other degradation products of lignin and cellulose via tandem mass spectrometry based on collision-activated dissociation (CAD). Many studies discussed here used model compounds to better understand both the ionization chemistry of the degradation products of lignin and cellulose and their ions' CAD reactions in mass spectrometers to develop methods for the structural characterization of the degradation products of lignocellulosic biomass. Further, model compound studies were also carried out to delineate the mechanisms of the fast pyrolysis reactions of lignocellulosic biomass. The above knowledge was used to assign likely structures to many degradation products of lignocellulosic biomass.
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Wang M, Yan R, Shan M, Liu S, Tang H. Fabrication of crown ether-containing copolymer porous membrane and their enhanced adsorption performance for cationic dyes: Experimental and DFT investigations. CHEMOSPHERE 2024; 352:141363. [PMID: 38346508 DOI: 10.1016/j.chemosphere.2024.141363] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/08/2023] [Revised: 01/31/2024] [Accepted: 02/01/2024] [Indexed: 02/19/2024]
Abstract
Adsorptive separation membranes are widely utilized for the removal of toxic dyeing pollutants from dyeing wastewater. However, developing novel adsorption membranes with large adsorption capacities and enhanced adsorption performance for dyes in actual wastewater poses a significant challenge. This study focuses on the fabrication of crown ether-containing copolymer porous membrane (CRPM) and investigation of the adsorption performance of dyes from aqueous solutions. The morphology structure and pore size distribution revealed that the membrane was endowed with rich micropores and hierarchical porous structures. Three typical cationic dyes (MB, RhB, CV) and an anionic dye (MO) were selected to evaluate the adsorption behavior. The results of adsorption isotherms and kinetics demonstrated that the adsorption data could be well-fitted using the Freundlich and pseudo-first-order kinetic models, the thermodynamic parameters revealed that the adsorption process of dyes on CRPM is a spontaneous endothermic reaction. The membrane exhibited excellent adsorption performance for cationic dyes, with RhB displaying a higher maximum adsorption capacity than previously reported porous membranes. Notably, dynamic adsorption-desorption filtration demonstrated a rapid removal efficiency, with RhB, MB, and CV achieving removal rates of 99.09%, 98.63%, and 99.14% respectively, after five cycles. The filtration volume of the CRPM membrane was 2.4-fold greater than that of a traditional PVDF membrane when applied to actual dyeing wastewater. DFT theoretical calculations were employed to elucidate the adsorption mechanism. These calculations confirmed the significant roles of electrostatic interactions, H-bonds and π-π interactions in facilitating the high-efficiency adsorption of cationic dyes. These findings highlight the potential of the crown ether-containing copolymer as a promising material for adsorption separation membranes in the treatment of dyeing wastewater.
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Espinosa Ferao A. Deoxygenation of Oxiranes by λ 3 σ 3 -Phosphorus Reagents: A Computational, Mechanistic, and Stereochemical Study. Chempluschem 2024; 89:e202300474. [PMID: 37782574 DOI: 10.1002/cplu.202300474] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Revised: 09/30/2023] [Accepted: 10/02/2023] [Indexed: 10/04/2023]
Abstract
The deoxygenation of parent and substituted oxiranes by λ3 σ3 -phosphorus reagents has been explored in detail, therefore unveiling mechanistic aspects as well as regio- and stereochemical consequences. Attack to a ring C atom is almost always preferred over one-step deoxygenation by direct P-to-O attack. In most cases a carbene transfer occurs as first step, leading to a phosphorane and a carbonyl unit that thereafter react in the usual Wittig fashion via the corresponding λ5 σ5 -1,2-oxaphosphetane intermediate. Betaines rarely constitute true minima after the first C-attack to oxiranes, at least in the gas-phase. Use of the heavier derivatives AsMe3 and SbMe3 as oxirane deoxygenating reagents was also mechanistically studied. The thermodynamic tendency of λ3 σ3 -phosphorus reagents to act as oxygen (O-attack) or carbene acceptors (C-attack) was theoretically studied by means of the thermodynamic oxygen-transfer potential (TOP) and the newly defined thermodynamic carbene-transfer potential (TCP) parameters, that were explored in a wider context together with many other acceptor centres.
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Venturini A, González J. Prebiotic Synthesis of Glycolaldehyde and Glyceraldehyde from Formaldehyde: A Computational Study on the Initial Steps of the Formose Reaction. Chempluschem 2024; 89:e202300388. [PMID: 37932034 DOI: 10.1002/cplu.202300388] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2023] [Revised: 10/10/2023] [Indexed: 11/08/2023]
Abstract
In this work, the initial steps of the mechanism of the Formose reaction (FR) is computationally studied using DFT methods. The FR has been considered to be a relevant process in the prebiotic evolution leading to several types of sugars or carbohydrates. These molecules are some of the basic building blocks of the life. The dimerization of formaldehyde was found to take place via an intramolecular deprotonation reaction, leading to the formation of an intermediate which, after an isomerization, forms a Ca-complex of the cis-enediol tautomer of glycolaldehyde. The aldol reaction of this complex with additional formaldehyde gave glyceraldehyde, the simplest aldotriose. The catalyst Ca(OH)2 plays a dual role in the reaction, acting as a base (in the intramolecular deprotonation) and as Lewis acid (activating the carbonyl group) in the aldol addition.
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Choi WI, Son WJ, Dronskowski R, Oh Y, Yang SY, Kwon U, Kim DS. Switchable Chemical-Bond Reorganization for the Stable Charge Trapping in Amorphous Silicon Nitride. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2024; 36:e2308054. [PMID: 37939362 DOI: 10.1002/adma.202308054] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2023] [Revised: 11/04/2023] [Indexed: 11/10/2023]
Abstract
Despite the widespread use of charge-trap flash (CTF) memory, the atomistic mechanism behind the exceptionally stable charge storage at the localized trap sites is still controversial. Herein, by combining first-principles calculations and orbital interaction analysis, a charge-dependent switchable chemical-bond reorganization is elucidated as the underpinning chemistry in the working mechanism of CTF. Especially, positively charged fourfold-coordinated nitrogen (dubbed N+ center), unappreciated until now, is the decisive component of the entire process; once an electron occupies this site, the N+ center disappears by breaking one N─Si bond, simultaneously forming a new Si─Si bond with a nearby Si atom which, in turn, creates fivefold coordinated Si. As a result, the electron is stored in a multi-center orbital belonging to multiple atoms including the newly formed Si─Si bond. It is also observed that hole trapping accompanies the creation of an N+ center by forming a new N─Si bond, which represents the reverse process. To further support and validate this model by means of core-level calculations, it is also shown that an N+ center's 1s core level is 1.0-2.5 eV deeper in energy than those of the threefold coordinated N atoms, in harmony with experimental X-ray photoelectron spectroscopy data.
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91
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Sun X, Fu Q, Ren J, Sun-Waterhouse D, Waterhouse GIN, Qiao X. Defective copper-based metal-organic frameworks for the efficient extraction of organosulfur compounds from garlic-processing wastewater. Food Chem 2024; 435:137628. [PMID: 37804731 DOI: 10.1016/j.foodchem.2023.137628] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2023] [Revised: 09/24/2023] [Accepted: 09/27/2023] [Indexed: 10/09/2023]
Abstract
Organosulfur compounds (OSCs) in garlic-processing wastewater are decomposed and generated to toxic and harmful substances with unpleasant odors under anaerobic conditions. Herein, were report the successful development of novel copper-based metal organic framework (Cu-MOF) adsorbents with high adsorption capacities for OSCs in aqueous media. Defect-rich Cu-MOF-X samples, with particle sizes between 360 and 750 nm, synthesized hydrothermal in the presence of acetic acid (where X denotes the molar ratio of acetic acid relative to the pentadentate MOF linker H4PPYD). OSC adsorption experiments using allicin, ajoene and 2-ethenyl-4H-1,3-dithiine (2-VDT) showed that Cu-MOF-200 delivered fast adsorption kinetics and high OSC adsorption capacities (149.02-171.33 mg g-1) owing to the pore accessibility and range of adsorption sites in the MOF. FT-IR, Raman, and XPS analyses, together with density functional theory (DFT) calculations, verified the strong yet reversible adsorption of OSCs in Cu-MOF-200. Results guide the development of improved adsorbents for OSC capture from garlic-processing wastewater.
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Li X, Qiu J, Cui H, Chen X, Yu J, Zheng K. Machine Learning Accelerated Discovery of Functional MXenes with Giant Piezoelectric Coefficients. ACS APPLIED MATERIALS & INTERFACES 2024. [PMID: 38421155 DOI: 10.1021/acsami.3c14610] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/02/2024]
Abstract
Efficient and rapid screening of target materials in a vast material space remains a significant challenge in the field of materials science. In this study, first-principles calculations and machine learning algorithms are performed to search for high out-of-plane piezoelectric stress coefficient materials in the MXene functional database among the 1757 groups of noncentrosymmetric MXenes with nonzero band gaps, which meet the criteria for piezoelectric properties. For the monatomic MXene testing set, the random forest regression (RFR), gradient boosting regression (GBR), support vector regression (SVR), and multilayer perceptron regression (MLPR) exhibit R2 values of 0.80, 0.80, 0.89, and 0.87, respectively. Expanding our analysis to the entire MXene data set, the best active learning cycle finds more than 140 and 22 MXenes with out-of-plane piezoelectric stress coefficients (e31) exceeding 3 × 10-10 and 5 × 10-10 C/m, respectively. Moreover, thermodynamic stabilities were confirmed in 22 MXenes with giant piezoelectric stress coefficients and 9 MXenes with both large in-plane (d11 > 15 pm/V) and out-of-plane (d31 > 2 pm/V) piezoelectric strain coefficients. These findings highlight the remarkable capabilities of machine learning and its optimization algorithms in accelerating the discovery of novel piezoelectric materials, and MXene materials emerge as highly promising candidates for piezoelectric materials.
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Benalia A, Boukaoud A, Amrani R, Krid A. A B3LYP-D3 computational study of electronic, structural and torsional dynamic properties of mono-substituted naphthalenes: the effect of the nature and position of substituent. J Mol Model 2024; 30:88. [PMID: 38421474 DOI: 10.1007/s00894-024-05884-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2023] [Accepted: 02/20/2024] [Indexed: 03/02/2024]
Abstract
CONTEXT The effects of selected substituent groups (-CH3, -Br, -CO2CH3, -COOH, and -NH2) and their relative positions on the electronic and structural properties of mono-substituted naphthalenes were investigated theoretically. In order to elucidate the suitability of the studied substituents in different fields including chemistry, spectroscopy, and materials sciences, accurate DFT calculations were performed at the dispersion-corrected B3LYP level of theory (B3LYP-D3/6-311 + + G(d,p)), and the obtained results were then validated by extensive comparisons with available experimental data. Among the studied substituents, the -NH2 group causes the maximum reduction of the HOMO-LUMO energy gap. This result revealed clearly the suitability of the -NH2 group, compared to other studied substituents, in the chemical synthesis of future organic-semiconductors having small energy gaps. In addition, the level of theory adopted in this study allowed the fine discrimination between the chemical reactivity parameters of the studied congeners, which is very difficult to perform experimentally. On the other hand, the rotational barriers of the studied non-halogen substituent groups were predicted. The greater sensitivity of the rotational barrier heights to the local environments, arising from intra-molecular interactions, was attributed to the -CH3 group. The torsional frequencies, calculated within the harmonic approximation, were also employed to relatively explore the differences between the environments of the same substituent at two different positions. The usefulness of these results can be manifested in the vibrational spectroscopy field, especially, for the IR/ Raman spectral analysis of polycyclic-aromatic congeners. METHOD All calculations were conducted within the Density functional theory (DFT) using the so-called dispersion-corrected B3LYP functional (B3LYP-D3) with the carefully selected 6-311 + + G(d,p) basis set. The B3LYP-D3/6-311 + + G(d,p) calculations were performed using the Gaussian 09 program, and the obtained results were visualized by employing the GaussView 6.0.16 program.
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Zhong Y, Ning S, Wu K, Li Z, Wang X, He C, Fujita T, Wang J, Chen L, Yin X, Hamza MF, Wei Y. Novel phosphate functionalized sodium alginate hydrogel for efficient adsorption and separation of Nd and Dy from Co. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 353:120283. [PMID: 38330842 DOI: 10.1016/j.jenvman.2024.120283] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Revised: 01/30/2024] [Accepted: 02/02/2024] [Indexed: 02/10/2024]
Abstract
The recovery of rare earth elements (REEs) including neodymium (Nd) and dysprosium (Dy) from NdFeB permanent magnets has become one of the main ways to solve the increased demand for rare earth. Herein, n-dodecyl phosphate (DPPA) was used for the first time as the adsorption functional group donor, sodium alginate as the substrate, and calcium chloride solution as the reactive solvent, a hybrid hydrogel adsorbent DPPA/CaALG was synthesized by sol-gel method for application in the adsorption and separation of Nd and Dy from the Co-Nd-Dy ternary system. SEM-EDS, and N2 adsorption-desorption analysis showed the successful preparation of DDPA/CaALG with mesoporous structure. Batch experiments showed the superiority of the hybrid hydrogel for the good selective adsorption of Nd and Dy, such as large adsorption capacity (Nd: 162.5 mg/g, Dy: 183.5 mg/g), and no adsorption for Co. FT-IR, XPS showed that PO and P-O groups are involved in the adsorption process of Nd and Dy as electron acceptors, where the ion exchange of P-OH is dominant. Furthermore, the chemical properties of ligands and complexes were analyzed by Density Functional Theory (DFT) calculations and revealed their adsorption behaviors as well as the competition between different metal ions.
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Tolbatov I, Umari P, Marrone A. Mechanism of Action of Antitumor Au(I) N-Heterocyclic Carbene Complexes: A Computational Insight on the Targeting of TrxR Selenocysteine. Int J Mol Sci 2024; 25:2625. [PMID: 38473872 DOI: 10.3390/ijms25052625] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2024] [Revised: 02/21/2024] [Accepted: 02/22/2024] [Indexed: 03/14/2024] Open
Abstract
The targeting of human thioredoxin reductase is widely recognized to be crucially involved in the anticancer properties of several metallodrugs, including Au(I) complexes. In this study, the mechanism of reaction between a set of five N-heterocyclic carbene Au(I) complexes and models of the active Sec residue in human thioredoxin reductase was investigated by means of density functional theory approaches. The study was specifically addressed to the kinetics and thermodynamics of the tiled process by aiming at elucidating and explaining the differential inhibitory potency in this set of analogous Au(I) bis-carbene complexes. While the calculated free energy profile showed a substantially similar reactivity, we found that the binding of these Au(I) bis-carbene at the active CysSec dyad in the TrxR enzyme could be subjected to steric and orientational restraints, underlining both the approach of the bis-carbene scaffold and the attack of the selenol group at the metal center. A new and detailed mechanistic insight to the anticancer activity of these Au(I) organometallic complexes was thus provided by consolidating the TrxR targeting paradigm.
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Mertens A, Eppers K, van Gerven D, Wickleder MS. Triflate's bigger brother: The unprecedented tribrate anion, [Br 3 CSO 3 ] . Chemistry 2024; 30:e202303617. [PMID: 38264922 DOI: 10.1002/chem.202303617] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2023] [Indexed: 01/25/2024]
Abstract
The synthesis of the unprecedented [Br3 CSO3 ]- anion starts with the bromination of phenylmethanesulfonate, C6 H5 OSO2 CH3 , with KOBr leading to C6 H5 OSO2 CBr3 . The formation of the [CBr3 ] moiety has been proved, also by an X-ray structure determination of the compound (triclinic, P-1, a=685.9(2), b=698.1(2), c=1190.2(3) pm, α=93.99(1)°, β=97.42(1)°, γ=94.45(1)°). The ester C6 H5 OSO2 CBr3 can be split under basic conditions. The resulting acid provides access to the yet unknown tribromomethanesulfates ("tribrates"). K[Br3 CSO3 ] ⋅ H2 O, the first tribrate known so far has been characterized comprehensively, including an X-ray structure determination (monoclinic, C2/c, a=2267.1(2), b=1282.25(8), c=2618.2(2) pm, β=111.266(2)°), vibrational spectroscopy and theoretical calculations. Moreover, the thermal analysis shows that, after loss of the crystal water, the tribrate decomposes between 530 and 630 K.
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Qu ZW, Zhu H, Grimme S. Reactivity of Frustrated Lewis Pair: Carbocation versus Radical Intermediates. Chemistry 2024; 30:e202303901. [PMID: 38116858 DOI: 10.1002/chem.202303901] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/23/2023] [Revised: 12/18/2023] [Accepted: 12/19/2023] [Indexed: 12/21/2023]
Abstract
Recent reports of radical formation within frustrated Lewis pairs (FLPs) suggested that single-electron transfer (SET) could play an important role in their chemistry especially for C-C coupling. In sharp contrast, our extensive dispersion-corrected DFT calculations show that although reactive benzhydryl radical along with phosphine radical cation species can be kinetically generated from bulky phosphines and benzhydryl cation, direct P-C hetero-coupling may lead to bulky phosphonium cation as reactive carbocation transfer reagents to styrene substrates, which is kinetically much more favorable than the recently proposed radical C-C coupling between benzhydryl radical and styrene. Similarly, meta-stable radical cation Mes3 P+ ⋅ salt is also kinetically accessible via SET reactions of Mes3 P and B(C6 F5 )3 with 0.5 equivalent of p-O2 C6 Cl4 .
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Wang C, Zhao S, Han G, Bian H, Zhao X, Wang L, Xie G. Hierarchical Porous Nonprecious High-entropy Alloys for Ultralow Overpotential in Hydrogen Evolution Reaction. SMALL METHODS 2024:e2301691. [PMID: 38372003 DOI: 10.1002/smtd.202301691] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2023] [Revised: 01/16/2024] [Indexed: 02/20/2024]
Abstract
Water electrolysis is considered the cleanest method for hydrogen production. However, the widespread popularization of water splitting is limited by the high cost and scarce resources of efficient platinum group metals. Hence, it is imperative to develop an economical and high-performance electrocatalyst to improve the efficiency of hydrogen evolution reaction (HER). In this study, a hierarchical porous sandwich structure is fabricated through dealloying FeCoNiCuAl2 Mn high-entropy alloy (HEA). This free-standing electrocatalyst shows outstanding HER performance with a very small overpotential of 9.7 mV at 10 mA cm-2 and a low Tafel slope of 56.9 mV dec-1 in 1 M KOH solution, outperforming commercial Pt/C. Furthermore, this electrocatalytic system recorded excellent reaction stability over 100 h with a constant current density of 100 mA cm-2 . The enhanced electrochemical activity in high-entropy alloys results from the cocktail effect, which is detected by density functional theory (DFT) calculation. Additionally, micron- and nano-sized pores formed during etching boost mass transfer, ensuring sustained electrocatalyst performance even at high current densities. This work provides a new insight for development in the commercial electrocatalysts for water splitting.
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Li J, Fan X, Chen J, Shi G, Liu X. Enhancement of gas adsorption on transition metal ion-modified graphene using DFT calculations. J Mol Model 2024; 30:72. [PMID: 38366130 DOI: 10.1007/s00894-024-05872-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2023] [Accepted: 02/06/2024] [Indexed: 02/18/2024]
Abstract
CONTEXT Graphene-based nanomaterial was widely used in gas sensors, detection, and separation. However, weak adsorption and low selectivity of the pristine graphene used for gas sensors are major problems. Here, using density functional theory (DFT) calculations, we reported the significant increase of four gas molecules (N2, CO2, C2H2, and C2H4) adsorption on the transition metal ion (Fe3+, Co2+, Ni2+)-modified graphene complex (Fe3+/Co2+/Ni2+-G) comparing to be absorbed on the pristine graphene (G). Moreover, the Co2+-G is suitable for the selective separation of C2H4/C2H2 due to the larger adsorption energy difference (8.5 kcal/mol) between them. The addition of transition metal ions also decreased the HOMO-LUMO gap of the systems, which benefits the enhancement of electrical conductivity. This suggests that the transition metal ion-modified graphene can be used to distinguish the different gas molecule's adsorption, facilitating the design of graphene-based gas sensors and selective separation. METHODS All the density functional theory (DFT) calculations were performed by B3LYP with the GD3 dispersion method using Gaussian 16 software. The basis set 6-31G(d) was used for C, H, O, and N atoms, and Lanl2DZ was used for transition metal ions (Fe3+, Co2+, Ni2+). The DOS analysis and energy decomposition analysis were performed using the Multiwfn program.
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Li Y, Briand M, Miqueu K, Anselmi E, Magnier E, Dagousset G. Electrophilic Fluorination of Silyl Dienol Ethers: a General and Selective Access to γ-Fluoro Enals. Chemistry 2024; 30:e202303545. [PMID: 38055212 DOI: 10.1002/chem.202303545] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2023] [Revised: 12/04/2023] [Accepted: 12/06/2023] [Indexed: 12/07/2023]
Abstract
We describe the direct synthesis of γ-fluoro enals from the corresponding silyl dienol ethers. This simple process operates under mild conditions and is compatible with a wide range of functionalities. The high γ regioselectivity of this protocol was rationalized by means of theoretical calculations.
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