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Prebiotic Vitamin B 3 Synthesis in Carbonaceous Planetesimals. Chempluschem 2024; 89:e202300508. [PMID: 37847591 DOI: 10.1002/cplu.202300508] [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: 09/08/2023] [Revised: 10/11/2023] [Accepted: 10/12/2023] [Indexed: 10/19/2023]
Abstract
Aqueous chemistry within carbonaceous planetesimals is promising for synthesizing prebiotic organic matter essential to all life. Meteorites derived from these planetesimals delivered these life building blocks to the early Earth, potentially facilitating the origins of life. Here, we studied the formation of vitamin B3 as it is an important precursor of the coenzyme NAD(P)(H), which is essential for the metabolism of all life as we know it. We propose a new reaction mechanism based on known experiments in the literature that explains the synthesis of vitamin B3. It combines the sugar precursors glyceraldehyde or dihydroxyacetone with the amino acids aspartic acid or asparagine in aqueous solution without oxygen or other oxidizing agents. We performed thermochemical equilibrium calculations to test the thermodynamic favorability. The predicted vitamin B3 abundances resulting from this new pathway were compared with measured values in asteroids and meteorites. We conclude that competition for reactants and decomposition by hydrolysis are necessary to explain the prebiotic content of meteorites. In sum, our model fits well into the complex network of chemical pathways active in this environment.
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Theoretical determination of the standard enthalpies of formation of alkyl radicals using the concept of a complete set of homodesmotic reactions. J Mol Graph Model 2023; 125:108615. [PMID: 37647723 DOI: 10.1016/j.jmgm.2023.108615] [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: 04/16/2023] [Revised: 08/23/2023] [Accepted: 08/23/2023] [Indexed: 09/01/2023]
Abstract
The complete sets of homodesmotic reactions (HDR) for 107 acyclic alkyl free radicals С4-С9 of normal and branched structure were constructed using the graph-theoretic representation and analysis of a tested compound. The absolute enthalpies of the studied compounds and HDR reference structures were calculated using the M062X/cc-pVTZ level of theory. Based on these data, the thermal effects of HDRs were calculated and then applied to determine the standard enthalpies of formation of the studied radicals using the known enthalpies of formation of reference structures. The dissociation energies of BDE C-H and C-CH3 bonds were also calculated. The effect of radical structure on the BDE value is discussed, and a new effect of stabilization of the radical center in the skewed conformation of free radical is established; this effect has not been previously described in the scientific literature.
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Thermogravimetric and thermovolumetric study of municipal solid waste (MSW) and wood biomass for hydrogen-rich gas production: a case study of Tashkent region. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:112631-112643. [PMID: 37837588 DOI: 10.1007/s11356-023-30368-0] [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: 01/27/2023] [Accepted: 10/06/2023] [Indexed: 10/16/2023]
Abstract
Application of municipal solid and wood waste, as dominant sources of biomass, could be a promising alternative for producing energy from renewables via thermochemical gasification technology. In this paper, a study of thermogravimetric analysis (TGA) and excurrent gas composition produced by the municipal solid waste (MSW) and wood biomass gasification is presented. Thermogravimetric and heat flow curves for waste samples were performed at the temperature interval of 20-890 °C with a heating rate of 10 °C min-1 under a nitrogen atmosphere. According to thermal analysis data, differential scanning calorimetry (DSC) curves, the degradation stages of waste samples was determined, which correspond to the mono- or bimodal evolution of volatile compounds and the degradation of the resulting carbon residue. The gasification experiments were conducted in a high-pressure quartz reactor at temperatures of 850, 900, and 950 °C, using steam (0.3 g/min) and argon (2 dm3/min) as the gasifying agents. To ascertain the syngas composition, gas chromatography was employed in conjunction with a thermal conductivity detector. Both types of biomass showed remarkably similar syngas compositions. The highest concentration of hydrogen-rich gases was recorded at 950 °C for wood biomass, with 42.9 vol% and 25.2 vol% for hydrogen (H2) and carbon monoxide (CO), and for MSW, with an average 44.2 vol% and 18 vol% for H2 and CO. Higher temperatures improved the syngas composition by promoting endothermic gasification reactions, increasing hydrogen yield while decreasing tar and solid yields. This research helped to comprehend the evolution of the gasification process and the relationship between increased H2 and CO production as the gasification temperature increased.
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Structural, thermochemical and kinetic insights on the pyrolysis of diketene to produce ketene. J Mol Model 2023; 29:168. [PMID: 37133582 PMCID: PMC10156866 DOI: 10.1007/s00894-023-05572-x] [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: 02/02/2023] [Accepted: 04/21/2023] [Indexed: 05/04/2023]
Abstract
Diketene (4-methylideneoxetan-2-one) is a precursor to the formation of either two molecules of ketene, or allene and CO2 using pyrolysis techniques. It is not known experimentally which of these pathways is followed, or indeed if both are, during the dissociation process. We use computational methods to show that the formation of ketene has a lower barrier than formation of allene and CO2 under standard conditions (by 12 kJ/mol). According to CCSD(T)/CBS, CBS-QB3 and M06-2X/cc-pVTZ calculations the formation of allene and CO2 is favoured thermodynamically under standard conditions of temperature and pressure; however, kinetically the formation of ketene is favoured from transition state theory calculations at standard and elevated temperatures.
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Stereochemistry Controls Dihydrogen Bonding Strengths in Chiral Amine Boranes Adducts. Angew Chem Int Ed Engl 2022; 61:e202213859. [PMID: 36245340 PMCID: PMC10099978 DOI: 10.1002/anie.202213859] [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: 09/20/2022] [Indexed: 11/07/2022]
Abstract
The growing interest in exploiting novel concepts of non-covalent interactions in catalysts and supramolecular chemistry made us revisit a special kind of hydrogen bonding: the dihydrogen bond (DHB), formed between a classical hydrogen bond donor and a hydridic hydrogen as acceptor. Herein, we investigate how the strength of the N-Hδ+ ⋅⋅⋅δ- H-B interaction and hence the DHB-driven self-aggregation of amine-borane adducts is governed by steric effects by comparing the structures and binding enthalpies of various chiral derivatives. For a diastereomeric pair of amine-boranes prepared from a chiral secondary amine, we show that the stereochemistry at the nitrogen has significant influence on the interaction enthalpy. Based on this finding, N-chiral amine boranes can be envisioned to become interesting building blocks in supramolecular chemistry to fine-tune the formation dynamics of assemblies.
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Hydration effect of selected atmospheric gases with finite water clusters: A quantum chemical investigation towards atmospheric implications. CHEMOSPHERE 2022; 307:135947. [PMID: 35948098 DOI: 10.1016/j.chemosphere.2022.135947] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/20/2021] [Revised: 07/29/2022] [Accepted: 08/01/2022] [Indexed: 06/15/2023]
Abstract
Water vapor in atmosphere is ubiquitous, and it varies according to geographical locations. Various toxic and non-toxic gases co-exist with water vapor/moisture in the atmosphere. This computational study addresses the fact that how those gases interact with water vapor. We have done quantum chemical density functional theory calculations to probe the interaction of certain gases with a finite number of water molecules in gas phase with various functionals/basis sets. An ensemble of 14 gas molecules comprising various diatomic, triatomic, and polyatomic gases have been chosen for the investigations. The intermolecular interactions are understood from the interaction energy, electrostatic potential, frontier molecular orbitals, energy gap, and natural bond orbital analyses. Furthermore, quantum molecular descriptors such as electronegativity, chemical potential, chemical hardness and electrophilicity index are calculated to have deep insight on chemical nature of the gas molecules. Additionally, we have done implicit solvent modelling using PCM, and the corresponding solvation energies have been calculated. Interestingly, all the calculations and analyses have projected the similar results that Cl2, SO2, and NH3 have very high interaction with the water clusters. To mimic various altitudes (0 km, 5 km and 10 km) in the atmosphere, thermochemistry calculations have been carried out at different temperature and pressure values. The Gibbs free energies of formation suggest that the hydration of Cl2 is higher followed by O2, SO2 and NH3 at all altitudes. Remarkably, it is found that the formation of hydrated clusters of Cl2 and O2 with 4H2O are thermodynamically favourable. On the other hand, SO2 and NH3 requires 5H2O and 3H2O to form thermodynamically favourable clusters. In summary, it is anticipated that this kind of extensive computational studies facilitate to understand the structural, electronic, chemical and thermochemical properties of hydrated atmospheric gases that leads to the formation of prenucleation clusters followed by atmospheric aerosols.
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Molecular dynamics of fibric acids. EUROPEAN JOURNAL OF CHEMISTRY (PRINT) 2022; 13:186-195. [PMID: 35991691 PMCID: PMC9387361 DOI: 10.5155/eurjchem.13.2.186-195.2275] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2022] [Revised: 04/16/2022] [Accepted: 04/22/2022] [Indexed: 06/15/2023]
Abstract
1H- and 13C-NMR chemical shifts were measured for four fibric acids (bezafibrate, clofibric acid, fenofibric acid, and gemfibrozil), which are lipid-lowering drugs. Correlation is found with DFT-computed chemical shifts from the conformational analysis. Equilibrium populations of optimized conformers at 298 K are very different when based on computed Gibbs energies rather than on potential energies. This is due to the significant entropic advantages of extended rather than bent conformational shapes. Abundant conformers with intramolecular hydrogen bonding via five-member rings are computed for three fibric acids, but not gemfibrozil, which lacks suitable connectivity of carboxyl and phenoxy groups. Trends in computed atom-positional deviations, molecular volumes, surface areas, and dipole moments among the fibric acids and their constituent conformations indicate that bezafibrate has the greatest hydrophilicity and fenofibric acid has the greatest flexibility. Theoretical and experimental comparison of chemical shifts of standards with sufficient overlap of fragments containing common atoms, groups, and connectivity may provide a reliable minimal set to benchmark and generate leads.
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The Chemical Bond: When Atom Size Instead of Electronegativity Difference Determines Trend in Bond Strength. Chemistry 2021; 27:15616-15622. [PMID: 34609774 PMCID: PMC9298008 DOI: 10.1002/chem.202103544] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Indexed: 11/28/2022]
Abstract
We have quantum chemically analyzed element−element bonds of archetypal HnX−YHn molecules (X, Y=C, N, O, F, Si, P, S, Cl, Br, I), using density functional theory. One purpose is to obtain a set of consistent homolytic bond dissociation energies (BDE) for establishing accurate trends across the periodic table. The main objective is to elucidate the underlying physical factors behind these chemical bonding trends. On one hand, we confirm that, along a period (e. g., from C−C to C−F), bonds strengthen because the electronegativity difference across the bond increases. But, down a period, our findings constitute a paradigm shift. From C−F to C−I, for example, bonds do become weaker, however, not because of the decreasing electronegativity difference. Instead, we show that the effective atom size (via steric Pauli repulsion) is the causal factor behind bond weakening in this series, and behind the weakening in orbital interactions at the equilibrium distance. We discuss the actual bonding mechanism and the importance of analyzing this mechanism as a function of the bond distance.
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Study on pressurized upgradation of pyrolysis oil for high-value liquid products. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:62541-62548. [PMID: 34212325 DOI: 10.1007/s11356-021-14401-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2021] [Accepted: 05/10/2021] [Indexed: 06/13/2023]
Abstract
Upgradation of pyrolysis oil is a key process to achieve high-quality biofuel. In this study, the effects of different Ar pressures and H2/Ar ratios in the presence and absence of catalysts on deoxygenation of pyrolysis oil were investigated by autoclaving. When the initial pressure of the reaction is 6MPa and without catalyst addition, the content of carboxylic acid decreases from 51.52 to 41.54%, whereas with the addition of catalyst (10 % Ni/C), the deoxygenation and hydrocarbon content in the product were significantly improved. Hence, 6 MPa was found to be optimum and above which failed to induce such useful changes but can lead to lower high heating value (HHV). However, the presence of hydrogen affects the content of alkanes and olefins in the product.
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Density functional theory-based analyses on selective gas separation by β-PVDF-supported ionic liquid membranes. J Mol Graph Model 2021; 108:108004. [PMID: 34438240 DOI: 10.1016/j.jmgm.2021.108004] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2021] [Revised: 08/06/2021] [Accepted: 08/08/2021] [Indexed: 12/14/2022]
Abstract
Finding proper candidates for polymer-supported ionic liquid (IL)-based gas separating membranes is a challenge. The current article elucidates the quantum chemical perspective of the selective gas adsorption efficiency, from a mixture of CO2, CO, CH4, and H2, of α- and β-polyvinylidene fluoride (PVDF)-supported imidazolium- and pyridinium-based six ionic liquid membranes. Although IL-based membrane efficiency mainly depends on the gas solubility of ILs, IL/support binding and gas adsorption on the support material are also studied to describe the overall gas adsorption properties of the PVDF/IL complexes. β-PVDF exhibits better binding with the ILs, and better gas affinity, thus, qualified as a more suitable membrane component as compared to α-PVDF. Dispersion-corrected density functional calculations are performed to provide a detailed insight into the energetic interactions, nonbonding intermolecular interactions based on symmetry adapted perturbation theory (SAPT), natural bond orbitals (NBO), Bader's quantum theory of atoms in molecules (QTAIM), reduced density gradient (RDG), frontier orbital interactions, density of states (DOS), and thermochemical analyses of the gas-adsorbed systems. Gas molecules interact with the membrane components through weak hydrogen bonds and exhibit low interaction energies, indicating physisorption of the gases. Gas adsorption energies are more negative than the mutual interaction energies of the gas molecules, ensuring effective gas adsorption by the membrane components. All the β-PVDF/IL systems have shown the highest and lowest affinity for CO2 and H2, respectively, leading to effective separation of CO2 and H2 from the other gases.
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Investigation of kinetics of phenyl radicals with ethyl formate in the gas phase using cavity ring-down spectroscopy and theoretical methodologies. Photochem Photobiol Sci 2021; 20:859-873. [PMID: 34196955 DOI: 10.1007/s43630-021-00053-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2020] [Accepted: 05/06/2021] [Indexed: 10/21/2022]
Abstract
The gas-phase kinetics of phenyl radical (·C6H5) with ethyl formate (HCO2Et, EF) was investigated experimentally using ultrasensitive laser-based cavity ring-down spectroscopy (CRDS). Phenyl radicals were generated by photolyzing nitrosobenzene (C6H5NO) at 248 nm and thereby probed at 504.8 nm. The rate coefficients for the (phenyl radical + EF) reaction were investigated between the temperatures of 260 and 361 K and at a pressure of 61 Torr with nitrogen (N2) as diluent. The temperature-dependent Arrhenius expression for the test reaction was obtained as: [Formula: see text]=(1.20 ± 0.16) × 10-13 exp[-(435.6 ± 50.0)/T] cm3 molecule-1 s-1 and the rate coefficient at room temperature was measured out to be: [Formula: see text]=(4.54 ± 0.42) × 10-14 cm3 molecule-1 s-1. The effects of pressure and laser fluence on the kinetics of the test reaction were found to be negligible within the experimental uncertainties. To complement the experimental findings, kinetics for the reaction of phenyl radicals with EF was investigated theoretically using Canonical Variational Transition State Theory (CVT) with Small Curvature Tunnelling (SCT) at CCSD(T)/cc-pVDZ//B3LYP/6-31 + G(d,p) level of theory in the temperatures between 200 and 400 K. The theoretically calculated rate coefficients for the title reaction were expressed in the Arrhenius form as: [Formula: see text]= (1.48 ± 0.56) × 10-38 × T8.47 × exp[(2431.3 ± 322.0)/T] cm3 molecule-1 s-1 and the corresponding rate coefficient at room temperature was calculated to be: [Formula: see text]= 4.91 × 10-14 cm3 molecule-1 s-1. A very good agreement was observed between the experimentally measured and theoretically calculated rate coefficients at 298 K. Thermochemical parameters as well as branching ratios for the reaction of (phenyl radical + EF) are also discussed in this manuscript.
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Microbial lipid biosynthesis from lignocellulosic biomass pyrolysis products. Biotechnol Adv 2021; 54:107791. [PMID: 34192583 DOI: 10.1016/j.biotechadv.2021.107791] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2021] [Revised: 05/18/2021] [Accepted: 06/24/2021] [Indexed: 01/08/2023]
Abstract
Lipids are a biorefinery platform to prepare fuel, food and health products. They are traditionally obtained from plants, but those of microbial origin allow for a better use of land and C resources, among other benefits. Several (thermo)chemical and biochemical strategies are used for the conversion of C contained in lignocellulosic biomass into lipids. In particular, pyrolysis can process virtually any biomass and is easy to scale up. Products offer cost-effective, renewable C in the form of readily fermentable molecules and other upgradable intermediates. Although the production of microbial lipids has been studied for 30 years, their incorporation into biorefineries was only described a few years ago. As pyrolysis becomes a profitable technology to depolymerize lignocellulosic biomass into assimilable C, the number of investigations on it raises significantly. This article describes the challenges and opportunities resulting from the combination of lignocellulosic biomass pyrolysis and lipid biosynthesis with oleaginous microorganisms. First, this work presents the basics of the individual processes, and then it shows state-of-the-art processes for the preparation of microbial lipids from biomass pyrolysis products. Advanced knowledge on separation techniques, structure analysis, and fermentability is detailed for each biomass pyrolysis fraction. Finally, the microbial fatty acid platform comprising biofuel, human food and animal feed products, and others, is presented. Literature shows that the microbial lipid production from anhydrosugars, like levoglucosan, and short-chain organic acids, like acetic acid, is straightforward. Indeed, processes achieving nearly theoretical yields form the latter have been described. Some authors have shown that lipid biosynthesis from different lignin sources is biochemically feasible. However, it still imposes major challenges regarding strain performance. No report on the fermentation of pyrolytic lignin is yet available. Research on the microbial uptake of pyrolytic humins remains vacant. Microorganisms that make use of methane show promising results at the proof-of-concept level. Overall, despite some issues need to be tackled, it is now possible to conceive new versatile biorefinery models by combining lignocellulosic biomass pyrolysis products and robust oleaginous microbial cell factories.
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Abstract
Nitrogen (N2) fixation to produce bio-available ammonia (NH3) is essential to all life but is a challenging transformation to catalyse owing to the chemical inertness of N2. Transition metals can, however, bind N2 and activate it for functionalization. Significant opportunities remain in developing robust and efficient transition metal catalysts for the N2 reduction reaction (N2RR). One opportunity to target in catalyst design concerns the stabilization of transition metal diazenido species (M-NNH) that result from the first N2 functionalization step. Well-characterized M-NNH species remain very rare, likely a consequence of their low N-H bond dissociation free energies (BDFEs). In this essay, we discuss the relationship between the BDFEN-H of a given M-NNH species to the observed overpotential and selectivity for N2RR catalysis with that catalyst system. We note that developing strategies to either increase the N-H BDFEs of M-NNH species, or to avoid M-NNH intermediates altogether, are potential routes to improved N2RR efficiency.
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Density functional theory based studies on the adsorption of rare-earth ions from hydrated nitrate salt solutions on g-C 3N 4 monolayer surface. J Mol Graph Model 2020; 97:107577. [PMID: 32179421 DOI: 10.1016/j.jmgm.2020.107577] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2019] [Revised: 02/28/2020] [Accepted: 03/03/2020] [Indexed: 12/14/2022]
Abstract
This article represents density functional theory (DFT) based comparative analysis on six trivalent rare-earth ions (RE3+; RE: Y, La, Ce, Sm, Eu and Gd) absorption, from the respective nitrate-hexahydrate salts, on graphitic carbon nitride (g-C3N4) 2D monolayer, and the photocatalytic properties of the RE3+ adsorbed g-C3N4 systems (g-C3N4/RE3+) based on the ground-state electronic structure calculations. Structure, stability and coordination chemistry of two configurations of each hydrated RE-salt system are discussed in detail. Both DFT (B3LYP/SDD) and semi-empirical (Sparkle/PM7) calculations identify the central N6 vacancy of pristine g-C3N4 as the most suitable site for RE3+ adsorption. Bader's QTAIM, Mayer bond order and charge population analyses (ADCH, CHELPG and DDEC) are performed to describe the bond characteristics within the systems under study. Thermochemical calculations suggest that the adsorption process is thermodynamically more feasible for higher atomic number (Z) RE3+ [Sm3+, Eu3+ and Gd3+], compared to lower-Z RE3+ [Y3+, La3+ and Ce3+] ions. Besides, the better photocatalytic properties of higher-Z RE3+ adsorbed g-C3N4 systems are revealed from better HOMO-LUMO delocalization, decreased HOMO-LUMO gap, increased softness, higher electrophilicity and electron transfer parameter, compared to pristine or lower-Z RE3+ adsorbed g-C3N4 systems, as obtained from Hirshfeld orbital compositions, density of states and condensed Fukui function analyses.
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Thermodynamics and Reaction Mechanisms for Decomposition of a Simple Protonated Tripeptide, H +GAG: a Guided Ion Beam and Computational Study. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2019; 30:1013-1027. [PMID: 30850973 DOI: 10.1007/s13361-019-02144-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/03/2018] [Accepted: 01/23/2019] [Indexed: 06/09/2023]
Abstract
We present a thorough characterization of fragmentations observed in threshold collision-induced dissociation (TCID) experiments of protonated glycylalanylglycine (H+GAG) with Xe using a guided ion beam tandem mass spectrometer. Kinetic energy dependent cross sections for nine ionic products were observed and analyzed to provide 0 K barriers for the six primary products: [b2]+, [y1 + 2H]+, [b3]+, CO loss, [y2 + 2H]+, and [a1]+; and three secondary products: [a2]+, [a3]+, and CH3CHNH2+, after accounting for multiple ion-molecule collisions, internal energy of reactant ions, unimolecular decay rates, competition between channels, and sequential dissociations. Relaxed potential energy surface scans performed at the B3LYP-GD3BJ/6-311+G(d,p) level of theory are used to identify transition states (TSs) and intermediates of the six primary and one secondary products (where the other two secondary products have mechanisms previously established). Geometry optimizations and single-point energy calculations were performed at several levels of theory. These theoretical energies are compared with experimental threshold energies and are found to give reasonably good agreement, with B3LYP-GD3BJ and M06-2X levels of theory performing better than other levels. The results obtained here are also compared with previous results for decomposition of H+GGG. The primary difference observed is a lowering of the threshold for the [b2]+ product ion and a concomitant suppression of the directly competing [y1 + 2H]+ product, the result of specific methylation of the [b2]+ product ion.
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DFT investigation on thermochemical analyses of conversion of xylose to linear alkanes in aqueous phase. J Mol Graph Model 2019; 90:199-209. [PMID: 31102944 DOI: 10.1016/j.jmgm.2019.05.005] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2019] [Revised: 05/07/2019] [Accepted: 05/08/2019] [Indexed: 10/26/2022]
Abstract
Xylose is an integral part of hemicellulose fraction of lignocellulosic biomass. Its abundance in the lignocellulose makes it a desirable component for converting into various value-added compounds. In this study, conversion of xylose to four linear alkanes has been discussed by five different schemes including their thermochemistry under the framework of density functional theory. Main products are butane, pentane, octane and tridecane whereas the intermediate products include furfural, tetrahydrofuran, pentane-1,5-diol, etc. The simulations have been performed at B3LYP/6-31 + g(d,p) and M06-2X/6-31 + g(d,p) level of theories in aqueous phase using SMD solvation model. Thermochemical parameters (ΔG, ΔH and Keq) are obtained at a wide range of temperature, i.e. 298-698 K. Single point energy change (ΔE) of all the conversion steps has also been calculated at M05-2X/6-311++g(3df,2p) level of theory in the aqueous phase. It is observed that temperature plays a vital role in the formation of products. At high temperature, only scheme RS 1 (i.e. xylose to butane) can proceed to produce butane. The absolute difference between two functionals, B3LYP and M06-2X, was found to be small (<2 kcal/mol) for ring opening reactions making both the functionals suitable for a qualitative study. For saturation of cyclic compounds, a large difference (>10 kcal/mol) was observed between the two functionals making higher accuracy method more suitable for them. For all other reactions, use of M06-2X can be preferred.
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Thermochemistry and kinetic analysis for the conversion of furfural to valuable added products. J Mol Model 2019; 25:26. [PMID: 30612236 DOI: 10.1007/s00894-018-3908-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/05/2018] [Accepted: 12/17/2018] [Indexed: 11/28/2022]
Abstract
Furfural is a valuable oxygenated compound derived from the thermal decomposition of biomass, and is one of the major problems of bio-oil upgrading. Due to its high reactivity, this compound requires further upgrading to more stable products such as furfuryl alcohol, 2-methylfuran (MF), furan, 2-methyltetrahydrofuran, and tetrahydrofuran. The thermochemical data and kinetic analysis of the reactions involved in the conversion of furfural were investigated by molecular modeling to guide experimental investigations in the process of designing efficient catalysts that allows the control of the reaction pathways in specific directions, towards the production of fuel precursors or chemicals. All calculations for reactants, intermediates, and products were performed using the long range corrected functional WB97XD, with the basis set 6-311+g(d,p), under the density functional theory framework. Thermochemistry results suggest that furfural hydrogenation to form furfuryl alcohol is spontaneous up to a temperature of 523 K, but beyond this temperature the reaction becomes a nonspontaneous process. By contrast, the decarbonylation of furfural was thermodynamically favored at temperatures greater than 523 K. Therefore, furan is a thermodynamically favored product, while furfuryl alcohol is kinetically preferred. Once furfuryl alcohol is formed, the hydrogenolysis path to produce methylfuran is favored kinetically and thermodynamically, compared to the ring-hydrogenation towards tetrahydrofurfuryl alcohol. Gas phase thermodynamic properties and rate constants of the reactions involved in the conversion of furfural were calculated and compared against existing experimental data. This study provides the basis for further vapor phase catalytic studies required for upgrading of furans/furfurals to value-added chemicals. Graphical abstract Furan is a thermodynamically favored product, while furfuryl alcohol is kinetically preferred.
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Fabrication of spherical biochar by a two-step thermal process from waste potato peel. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 626:478-485. [PMID: 29353788 DOI: 10.1016/j.scitotenv.2018.01.052] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/15/2017] [Revised: 12/28/2017] [Accepted: 01/06/2018] [Indexed: 05/27/2023]
Abstract
The aim of this study was to develop a new approach for the preparation of spherical biochar (SBC) by employing a two-step thermal technology to potato peel waste (PPW). Potato starch (PS), as a carbon-rich material with microscale spherical shape, was separated from PPW as a precursor to synthesizing SBC. The synthesis process comprised (1) pre-oxidization (preheating under air) of PS at 220 °C and (2) subsequent pyrolysis of the pretreated sample at 700 °C. Results showed that the produced SBC successfully retained the original PS morphology and that pre-oxidization was the key for its shape maintenance, as it reduced surface tension and enhanced structural stability. The SBC possessed excellent chemical inertness (high aromaticity) and uniform particle size (10-30 μm). Zero-cost waste material with a facile and easy-to-control process allows the method to be readily scalable for industrialization, while offering a new perspective on the full use of PPW.
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Non- identical thermochemical behavior of 234U-and 238U- isotopes in metamict britholite. Appl Radiat Isot 2016; 119:1-5. [PMID: 27792881 DOI: 10.1016/j.apradiso.2016.08.023] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2016] [Revised: 08/16/2016] [Accepted: 08/29/2016] [Indexed: 11/28/2022]
Abstract
A radiochemical analysis of the valence state of uranium isotopes in minerals involves isolation of the U(IV) and U(VI) valence forms and determination of the radioactivity of the 234U and 238U isotopes in each fraction. If the nuclear decay of the uranium in the minerals is accompanied by a redox process, the distribution of the 234U isotope in the U(IV) and U(VI) forms will differ from that of the 238U isotope: oxidation leads to enrichment of the U(VI) fraction with the radiogenic 234U isotope; reduction facilitates enrichment of the U(IV) fraction with 234U. If the mineral is heated to 600-700°C before the radiochemical analysis, then an equilibrium activity ratio (AR) for both valences. The question arises: What are the processes that bring this about? The authors of this research studied changes of the AR in the U(IV) and U(VI) fractions after isochronous thermal annealing.
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Dimerization of quercetin, Diels-Alder vs. radical-coupling approach: a joint thermodynamics, kinetics, and topological study. J Mol Model 2016; 22:190. [PMID: 27449669 DOI: 10.1007/s00894-016-3051-8] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2016] [Accepted: 06/22/2016] [Indexed: 12/16/2022]
Abstract
Quercetin is a prototypical antioxidant and prominent member of flavonoids, a large group of natural polyphenols. The oxidation of quercetin may lead to its dimerization, which is a paradigm of the more general polyphenol oligomerization. There exist two opposing mechanisms to describe the dimerization process, namely radical-coupling or Diels-Alder reactions. This work presents a comprehensive rationalization of this dimerization process, acquired from density functional theory (DFT) calculations. It is found that the two-step radical-coupling pathway is thermodynamically and kinetically preferred over the Diels-Alder reaction. This is in agreement with the experimental results showing the formation of only one isomer, whereas the Diels-Alder mechanism would yield two isomers. The evolution in bonding, occurring during these two processes, is investigated using the atoms in molecules (AIM) and electron localization function (ELF) topological approaches. It is shown that some electron density is accumulated between the fragments in the transition state of the radical-coupling reaction, but not in the transition state of the Diels-Alder process. Graphical Abstract Quantum chemistry calculations of the dimerization process of quercetin show that a radical coupling approach is preferred to a Diels-Alder type reaction, in agreement with experimental results. Analysis of the bonding evolution highlights the reaction mechanism.
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A thermodynamic study of the cadmium-neodymium system. MONATSHEFTE FUR CHEMIE 2016; 147:1001-1008. [PMID: 27226651 PMCID: PMC4863036 DOI: 10.1007/s00706-016-1670-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 11/05/2015] [Accepted: 12/23/2015] [Indexed: 11/30/2022]
Abstract
Abstract Cd vapor pressures were determined over Cd–Nd samples by an isopiestic method. The measurements were carried out in the temperature range from about 690 to 1200 K and over a composition range between 48 and 92 at % Cd. From the vapor pressures, thermodynamic activities of Cd were derived for all samples at their respective sample temperatures, and partial molar enthalpies of Cd were obtained from the temperature dependence of the activities. With these partial molar enthalpies, the Cd activities were converted to a common temperature of 873 K. By means of a Gibbs–Duhem integration Nd activities and integral Gibbs energies were calculated, using a literature value of ΔfG for the phase Cd6Nd as integration constant. A minimum of ΔfG ≈ −38 kJ g-atom−1 at 873 K was obtained for the phase CdNd, a value that compares well with other CdRE compounds. Graphical abstract ![]()
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Stereochemistry and spectroscopic analysis of bis-Betti base derivatives of 2,3-dihydroxynaphthalene. J Mol Model 2016; 22:86. [PMID: 26994020 DOI: 10.1007/s00894-016-2936-x] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2015] [Accepted: 02/22/2016] [Indexed: 11/30/2022]
Abstract
Density functional theory (DFT) was used to study the stereochemistry, thermodynamic stability, and spectra of recently synthesized bis-Betti base derivatives of 2,3-dihydroxynaphthalene obtained through multicomponent reactions of 2,3-dihydroxynaphthalene with aminoisoxazole and benzaldehyde derivatives. The stereochemistry of the products was investigated by theoretically calculating the infrared (IR) and proton nuclear magnetic resonance ((1)H NMR) spectra of the diastereomers and comparing them to the corresponding experimental data. The thermochemical properties of the reactions, including the enthalpy, internal energy, entropy, and Gibbs free energy, were also calculated. The diastereoselectivity of the reactions was estimated from the equilibrium distribution of diastereomers. According to the results, the synthesis of bis-Betti bases is exothermic and accompanied by a decrease in entropy. The energy difference between the diastereomers is quite small, but the Gibbs free energy change for the equilibrium syn <−> anti favors the anti over syn configuration. These results are in good agreement with experimental observations.
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Solubility of rare earth metal bromides and iodides in aqueous systems. MONATSHEFTE FUR CHEMIE 2011; 142:211-218. [PMID: 26166857 PMCID: PMC4494847 DOI: 10.1007/s00706-011-0457-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/26/2010] [Accepted: 02/02/2011] [Indexed: 12/01/2022]
Abstract
Abstract The International Union of Pure and Applied Chemistry (IUPAC) project of collection, compilation, and critical evaluation of solubility data of bromides and iodides of the scandium group and all lanthanides in water and aqueous systems containing either halide acids, halide salts, or organic compounds is under preparation. As a result of their similarity to the chlorides, which were recently evaluated, the bromides and iodides in the lanthanide series should show some regularities in their solubility data. Unfortunately, the corresponding results show a large scatter when ordered according to the atomic number. Thus, it is complicated to select the best data for recommendation. Reasons for the inaccuracy of solubility measurements are outlined. In fact some solubility values of bromides predicted by correlation with chlorides seem to be more reliable than the experimental ones. As sufficient experimental data at various temperatures were available, the water-rich fragment of the LaBr3–H2O equilibrium phase diagram has been formed and depicted. It seems to be similar to the well-known LaCl3–H2O diagram. Several regularities, with respect to stoichiometry and solubility of compounds formed, were observed during investigations of the aqueous ternary systems. The complex iodides of various lanthanides display more regularities in their properties than the bromides do. Graphical abstract ![]()
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Abstract
AIM: To prepare a complex of hyaluronic acid (HA) and phospholipids (PL), and study the improvement effect of PL on the oral absorption of HA.
METHODS: The complex of HA-PL (named Haplex) was prepared by film dispersion and sonication method, its physico-chemical properties were identified by infrared spectra and differential scanning calorimetry (DSC). The oral absorption of Haplex was studied. Thirty-two healthy rats were divided into 4 groups randomly: (1) a normal saline (NS) control group; (2) an HA group; (3) a mixture group and (4) a Haplex group. After intragastric administration, the concentration of HA in serum was determined.
RESULTS: The physico-chemical properties of Haplex were different from HA or PL or their mixture. After Haplex was administered to rats orally, the serum concentration of HA was increased when compared with the mixture or HA control groups from 4 h to 10 h (P < 0.05). The ∆AUC0-12 h of Haplex was also greater than that of the other three groups (P < 0.05).
CONCLUSION: The method of film dispersion and sonication can prepare HA and PL complex, and PL can enhance the oral absorption of exogenous HA.
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Abstract
Helices composed of stacked layers are present in the novel silicate obtained from a silica sol and NaOH by hydrothermal synthesis in the presence of tetramethylammonium (TMA) hydroxide and 1,4-dioxane. The helical morphology is evident in scanning electron micrographs (see picture). The TMA and sodium ions of the silicate are readily replaced by protons, and on heating to 200°C a reversible phase transition occurs in which water molecules are lost from between the layers.
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