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Fan J, Wang P, Gao N. Temperature-dependent Raman spectroscopy and thermodynamic behaviors of energetic NTO crystal. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 321:124764. [PMID: 38959693 DOI: 10.1016/j.saa.2024.124764] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/04/2024] [Revised: 06/16/2024] [Accepted: 06/30/2024] [Indexed: 07/05/2024]
Abstract
The vibrational and thermodynamic properties of energetic materials (EMs) are critical to understand their structure responses at finite temperature. In this work, the zero-point energy and temperature effects are incorporated into dispersion-corrected density functional theory to improve the calculated accuracy for vibrational responses and thermodynamic behaviors of 3-nitro-1,2,4-triazole-5-one (NTO). Based on temperature-dependent Raman spectroscopy, the emergence and disappearance of new peaks as well as discontinuous Raman shifts indicate the distinct changes of molecular configuration and intermolecular interactions within the temperature of 250-350 K. From Hirshfeld surface and structure analysis, the subtle changes of intermolecular hydrogen bonds (HBs) related with the shrinkage of thermal expansion coefficient, are treated as an essential step of a potential structural transformation of NTO. Moreover, the calculated heat capacity, entropy and bulk moduli could reflect the softening behavior of NTO and further enrich the thermodynamic data set of EMs. These results demonstrate the evolution of NTO molecules controlled by non-covalent interactions and provide vital insights into the thermodynamic behaviors at finite temperature.
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Lei SJ, Liu QJ, Liu FS, Liu ZT, Yuan WS. First-principle calculations of the electronic, vibrational, and thermodynamic properties of nitrogen-rich salt of 3,6-dinitramino-1,2,4,5-tetrazine [(NH 4) 2(DNAT)]. J Mol Model 2024; 30:304. [PMID: 39120824 DOI: 10.1007/s00894-024-06098-6] [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: 02/12/2024] [Accepted: 07/29/2024] [Indexed: 08/10/2024]
Abstract
CONTEXT Energy-containing materials such as explosives have attracted considerable interest recently. In the field of high-energy materials, tetrazine and its derivatives can largely meet the requirements of high nitrogen content and oxygen balance. Nitrogen-rich energetic salts are important research subjects. Nitrogen-rich salt of 3,6-dinitramino-1,2,4,5-tetrazine is a high-energy nitrogen-rich material, but there are few related studies. This paper systematically studies the crystal structure and electronic, vibrational, and thermodynamic properties of (NH4)2(DNAT). The lattice parameters of (NH4)2(DNAT) are observed to align well with the experimental values. The properties of electrons are analyzed by band structure and density of states (DOS). The phonon dispersion curves indicate that the compound is dynamically stable. The vibrational modes of bonds and chemical groups are described in detail, and the peaks in the Raman and infrared spectra are assigned to different vibration modes. Based on the vibration characteristics, thermodynamic properties such as enthalpy (H), Helmholtz free energy (F), entropy (S), Gibbs free energy (G), constant volume heat capacity (CV), and Debye temperature (Θ) are analyzed. This article can pave the way for subsequent work or provide data support to other researchers, promoting further research. METHODS In this study, we utilized the density functional theory (DFT) for our calculations. The exchange-correlation potential and van der Waals interactions were characterized based on the GGA-PBE + G function calculation. We obtained Brillouin zone integrals using Monkhorst-Pack k-point grids, with the k-point of the Brillouin zone set to a 2 × 2 × 2 grid. During the self-consistent field operation, we set the total energy convergence tolerance to 5 × 10-6 eV per atom. The cut-off energy for the calculation was established at 830 eV. Additionally, the states of H (1s1), C (2s2 2p2), N (2s2 2p3), and O (2s2 2p4) were treated as valence electrons in our study.
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Xia S, Song J, Ma C, Hao T, Hou Y, Shen S, Li Z, Xue Y, Xue C, Jiang X. A mechanistic investigation into combined influences of NaCl and extrusion temperature on fibrous structures of high-moisture textured yeast protein. Food Chem 2024; 460:140421. [PMID: 39032293 DOI: 10.1016/j.foodchem.2024.140421] [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: 04/19/2024] [Revised: 06/26/2024] [Accepted: 07/09/2024] [Indexed: 07/23/2024]
Abstract
NaCl and extrusion temperature have an important influence on the qualities of high-moisture textured proteins, but the influence mechanism is still unclear. Therefore, this study prepared high-moisture textured yeast protein (HMTYP) with different NaCl contents (0%-4%) under different extrusion temperatures (170 °C, 180 °C) and characterized their physicochemical properties. The results showed that the HMTYP containing 1% and 2% NaCl prepared at 180 °C contained a strong fibrous structure. The possible mechanism was as follows: YP could not be sufficiently melted at 170 °C after adding NaCl, causing a decrease in the structural strength; however, at 180 °C, YP still reached a fully molten state even though 1%-2% NaCl was added. After YP sufficiently melted, NaCl enhanced the cross-linking and aggregation of proteins during cooling, which improved the textural properties of HMTYP. Accordingly, NaCl and extrusion temperature could combine to adjust the fibrous structure and texture of HMTYP.
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Evans NM, Shivers LR, To AJ, Murphy GK, Dieckmann T. Biophysical characterization and design of a minimal version of the Hoechst RNA aptamer. Biochem Biophys Res Commun 2024; 711:149908. [PMID: 38613867 DOI: 10.1016/j.bbrc.2024.149908] [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: 02/02/2024] [Revised: 03/24/2024] [Accepted: 04/05/2024] [Indexed: 04/15/2024]
Abstract
RNA aptamers are oligonucleotides, selected through Systematic Evolution of Ligands by EXponential Enrichment (SELEX), that can bind to specific target molecules with high affinity. One such molecule is the RNA aptamer that binds to a blue-fluorescent Hoechst dye that was modified with bulky t-Bu groups to prevent non-specific binding to DNA. This aptamer has potential for biosensor applications; however, limited information is available regarding its conformation, molecular interactions with the ligand, and binding mechanism. The study presented here aims to biophysically characterize the Hoechst RNA aptamer when complexed with the t-Bu Hoechst dye and to further optimize the RNA sequence by designing and synthesizing new sequence variants. Each variant aptamer-t-Bu Hoechst complex was evaluated through a combination of fluorescence emission, native polyacrylamide gel electrophoresis, fluorescence titration, and isothermal titration calorimetry experiments. The results were used to design a minimal version of the aptamer consisting of only 21 nucleotides. The performed study also describes a more efficient method for synthesizing the t-Bu Hoechst dye derivative. Understanding the biophysical properties of the t-Bu Hoechst dye-RNA complex lays the foundation for nuclear magnetic resonance spectroscopy studies and its potential development as a building block for an aptamer-based biosensor that can be used in medical, environmental or laboratory settings.
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Chakraborty J, Mahali K, Henaish AMA, Ahmed J, Alshehri SM, Roy S. Probing pharmaceutically important amino acids L-isoleucine and L-tyrosine Solubilities: Unraveling the solvation thermodynamics in diverse mixed solvent systems. Biophys Chem 2024; 309:107229. [PMID: 38555653 DOI: 10.1016/j.bpc.2024.107229] [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: 02/08/2024] [Revised: 03/15/2024] [Accepted: 03/24/2024] [Indexed: 04/02/2024]
Abstract
The study specifically investigates the solubilities of L-isoleucine and L-tyrosine in water-mixed solvent systems (DMF, DMSO, and ACN), exploring the behaviour of amino acids in complex environments. The experimental methods prioritize meticulous solvent purification to ensure reliable results. The work explores solubility data, uncovering temperature-dependent trends and intricate interactions influencing solubility in the chosen mixed solvent systems. The study emphasizes the impact of thermodynamic properties, solvent-solvent interactions, and amino acid structure on solubility patterns. The broader implications highlight the relevance of understanding amino acid behaviour in diverse solvent environments, offering potential applications in cosmetics and pharmaceutical industries. The distinct solubility patterns contribute valuable insights, enhancing on the understanding of the solution stability and interactions of L-isoleucine and L-tyrosine in different solvent systems. In conclusion, work suggests the enhanced utilization of L-isoleucine and L-tyrosine in various industries, driven by a profound understanding of their solubility in mixed solvent systems. The research expands our knowledge of amino acid behaviour, paving the way for advancements in industries relying on protein-based products and technologies.
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Gholami R, Azizi K, Ganjali Koli M. Unveiling the dynamic and thermodynamic interactions of hydrocortisone with β-cyclodextrin and its methylated derivatives through insights from molecular dynamics simulations. Sci Rep 2024; 14:12495. [PMID: 38822025 PMCID: PMC11143220 DOI: 10.1038/s41598-024-63034-7] [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: 04/06/2024] [Accepted: 05/23/2024] [Indexed: 06/02/2024] Open
Abstract
Cyclodextrins (CDs) can enhance the stability and bioavailability of pharmaceutical compounds by encapsulating them within their cavities. This study utilized molecular dynamics simulations to investigate the interaction mechanisms between hydrocortisone (HC) and various methylated CD derivatives. The results reveal that the loading of HC into CD cavities follows different mechanisms depending on the degree and position of methylation. Loading into βCD and 6-MeβCD was more complete, with the hydroxyl groups of HC facing the primary hydroxyl rim (PHR) and the ketone side facing the secondary hydroxyl rim (SHR). In contrast, 2,3-D-MeβCD and 2,6-D-MeβCD showed a different loading mechanism, with the ketone side facing the PHR and the hydroxyl groups facing the SHR. The root mean square fluctuation (RMSF) analysis demonstrated that methylation increases the flexibility of CD heavy atoms, with 3-MeβCD and 2,3-D-MeβCD exhibiting the highest flexibility. However, upon inclusion of HC, 3-MeβCD, 2,3-D-MeβCD, 2-MeβCD, and 6-MeβCD showed a significant reduction in flexibility, suggesting a more rigid structure that effectively retains HC within their cavities. The radial distribution function revealed a significant reduction in the number of water molecules within the innermost layer of the methylated CD cavities, particularly in TMeβCD, indicating a decrease in polarity. The presence of HC led to the release of high-energy water molecules, creating more favorable conditions for HC loading. Conformational analysis showed that methylation caused a partial decrease in the area of the PHR, a significant decrease in the area of the middle rim, and a notable decrease in the area of the SHR. The loading of HC increased the area of the PHR in most derivatives, with the most pronounced increase observed in 2,6-D-MeβCD and 6-MeβCD. The analysis of interaction energies and binding free energies demonstrated that the binding of HC to methylated CD derivatives is thermodynamically more favorable than to βCD, with the strongest association observed for 6-MeβCD, 2-MeβCD, and 2,3-D-MeβCD.
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Singh J, Errandonea D, Kanchana V, Vaitheeswaran G. Deep Earth Chronicles: High-Pressure Investigation of Phenakite Mineral Be 2SiO 4. Chemphyschem 2024; 25:e202300901. [PMID: 38345196 DOI: 10.1002/cphc.202300901] [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: 11/27/2023] [Revised: 01/28/2024] [Indexed: 03/07/2024]
Abstract
Beryllium silicate, recognized as the mineral phenakite (Be2SiO4), is a prevalent constituent in Earth's upper mantle. This study employs density-functional theory (DFT) calculations to explore the structural, mechanical, dynamical, thermodynamic, and electronic characteristics of this compound under both ambient and high-pressure conditions. Under ideal conditions, the DFT calculations align closely with experimental findings, confirming the mechanical and dynamical stability of the crystalline structure. Phenakite is characterized as an indirect band gap insulator, possessing an estimated band gap of 7.83 eV. Remarkably, oxygen states make a substantial contribution to both the upper limit of the valence band and the lower limit of the conduction band. We delved into the thermodynamic properties of the compound, including coefficients of thermal expansion, free energy, entropy, heat capacity, and the Gruneisen parameter across different temperatures. Our findings suggest that Be2SiO4 displays an isotropic behavior based on estimated anisotropic factors. Interestingly, our investigation revealed that, under pressure, the compression of phenakite is not significantly affected by bond angle bending.
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Zhang X, Zou J, Lu B, Bai G, Qiao L. Influence of mudstone on coal spontaneous combustion characteristics and oxidation kinetics analysis. Sci Rep 2024; 14:9744. [PMID: 38679606 PMCID: PMC11056369 DOI: 10.1038/s41598-024-59797-8] [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: 01/31/2024] [Accepted: 04/15/2024] [Indexed: 05/01/2024] Open
Abstract
To explore the spontaneous combustion characteristics and hazards of the low-temperature oxidation (LTO) stage in the process of spontaneous combustion of coal and mudstone, the pore structure, spontaneous combustion characteristic parameters, and exothermic characteristics of coal and mudstone were tested and studied, and the oxidation kinetic parameters were calculated. The results show that mudstone has a larger specific surface area and pore volume than coal. From the fractal characteristics, the pore structure of mudstone is more complex than that of coal. According to the comparison of theoretical and actual gas generation and oxygen consumption rate curves, it is found that there is an interaction between coal and mudstone in the LTO process. With the increase of mudstone mass ratio, gas production, and its oxygen consumption rate increase. Among them, CM-4 (Coal:Mudstone = 1:1) has the highest exothermic intensity and the exothermic factor (A) and fire coefficient (K) increase with the increase of mudstone content. The apparent activation energy of the mudstone sample is lower than that of the raw coal, indicating that the sample after adding mudstone is more likely to have spontaneous combustion in the LTO stage.
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Akbari AA, Zarghampour A, Hashemzadeh N, Hemmati S, Rahimpour E, Jouyban A. Solubility and thermodynamics of mesalazine in aqueous mixtures of poly ethylene glycol 200/600 at 293.2-313.2K. ANNALES PHARMACEUTIQUES FRANÇAISES 2024:S0003-4509(24)00045-2. [PMID: 38579928 DOI: 10.1016/j.pharma.2024.03.010] [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: 03/13/2024] [Revised: 03/26/2024] [Accepted: 03/31/2024] [Indexed: 04/07/2024]
Abstract
In this study, the solubility of mesalazine was investigated in binary solvent mixtures of poly ethylene glycols 200/600 and water at temperatures ranging from 293.2K to 313.2K. The solubility of mesalazine was determined using a shake-flask method, and its concentrations were measured using a UV-Vis spectrophotometer. The obtained solubility data were analyzed using mathematical models including the van't Hoff, Jouyban-Acree, Jouyban-Acree-van't Hoff, mixture response surface, and modified Wilson models. The experimental data obtained for mesalazine dissolution encompassed various thermodynamic properties, including ΔG°, ΔH°, ΔS°, and TΔS°. These properties offer valuable insights into the energetic aspects of the dissolution process and were calculated based on the van't Hoff equation.
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Potok P, Zawada M, Potocki S. Determination of the role of specific amino acids in the binding of Zn(II), Ni(II), and Cu(II) to the active site of the M10 family metallopeptidase. J Inorg Biochem 2024; 253:112500. [PMID: 38301386 DOI: 10.1016/j.jinorgbio.2024.112500] [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: 11/22/2023] [Revised: 01/17/2024] [Accepted: 01/26/2024] [Indexed: 02/03/2024]
Abstract
Metallopeptidases are a group of metal-dependent enzymes that hydrolyze peptide bonds. These enzymes found in Streptococcus pneumoniae assist the pathogen in infecting the host by breaking down host tissues and extracellular matrix proteins. Considering metallopeptidases' significant role in bacterial virulence, inhibiting this enzyme represents a promising avenue for research. These enzymes are characterized by the presence of Zn(II) in the active site, proper coordination of which is essential for their catalytic function. This work aims to determine the significance of the specific amino acids in the metal binding domain of metallopeptidase from S. pneumoniae. For this purpose, we investigated the coordination chemistry of Zn(II), Ni(II), and Cu(II) ions with point-mutated peptide models of the metal-binding domain. Mutations were introduced at His-2 (L1) and Glu-1. Studies have shown that at pH 7.14 (pH of infected lungs by S. pneumoniae), point mutation on glutamic acid caused only minor effects on the binding of Zn(II) and Ni(II), while significantly improving Cu(II) binding. The stability of copper complexes is greater with the mutant Glu-1 → Gln-1 than with the original domain due to a hydrogen bonding network created by the Gln backbone with its side chain. Substituting histidine resulted in a significant reduction in metal binding for all metal ions, highlighting the crucial role of His-2 in metal coordination. Introduced mutations at neutral pH did not significantly affect the secondary structure of metal complexes. However, at alkaline pH, the peptides showed a higher percentage of antiparallel β-sheet structures upon the addition of Cu(II), Ni(II) and Zn(II).
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Tian H, Fan Z, Wang Z, Fan Q, Ye Z, Gou F, Wei J. Prediction of vibrational spectrum and thermodynamic properties for phosphorus mononitride. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 304:123381. [PMID: 37734246 DOI: 10.1016/j.saa.2023.123381] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2023] [Revised: 08/29/2023] [Accepted: 09/07/2023] [Indexed: 09/23/2023]
Abstract
In this work, an accurate potential energy curve (PEC) for the ground electronic state of phosphorus mononitride (PN) molecule has been determined from a variationally improved Hulburt-Hirschfelder (VIHH) oscillator model in conjunction with the experimental spectral constants (De,ωe,ωexe,Be,αe,re). We have numerically solved the Schrödinger equation for the VIHH potential using the LEVEL program, obtaining the pure vibrational spectrum that converges to the dissociation limit. In addition, the partition functions of PN molecule are calculated using the full rovibrational energies. Ultimately, thermodynamic properties like molar heat capacity, entropy, enthalpy, and Gibbs free energy were calculated for the PN molecule and show good agreement with those data from the NIST (National Institute of Standards and Technology) database.
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Fiedler F, Karog J, Lemmon EW, Thol M. Fundamental Equation of State for Fluid Tetrahydrofuran. INTERNATIONAL JOURNAL OF THERMOPHYSICS 2023; 44:153. [PMID: 37822990 PMCID: PMC10562338 DOI: 10.1007/s10765-023-03258-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Accepted: 09/01/2023] [Indexed: 10/13/2023]
Abstract
An empirical fundamental equation of state in terms of the Helmholtz energy for tetrahydrofuran is presented. In the validity range from the triple-point temperature up to 550 K and pressures up to 600 MPa, the equation of state enables the calculation of all thermodynamic properties in the liquid, vapor, and super-critical regions including saturation states. Based on an extensive literature review, experimental data are represented within their experimental uncertainty. In the homogeneous liquid phase at atmospheric pressure, the uncertainty in density is 0.015 %, speed of sound is represented with an uncertainty of 0.03 %, and isobaric heat capacity has an uncertainty of 0.4 %. Isobaric heat capacities in the homogeneous vapor phase are described with an uncertainty of 0.2 %. Higher uncertainties occur above atmospheric pressure for all homogeneous properties. Depending on the temperature range, vapor pressure can be calculated with an uncertainty from 0.02 % to 3 %. The extrapolation behavior is evaluated, showing reasonable extrapolation behavior towards extreme conditions. Supplementary Information The online version contains supplementary material available at 10.1007/s10765-023-03258-3.
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Onyeaju MC, Omugbe E, Onate CA, Okon IB, Eyube ES, Okorie US, Ikot AN, Ogwu DA, Osuhor PO. Information theory and thermodynamic properties of diatomic molecules using molecular potential. J Mol Model 2023; 29:311. [PMID: 37698769 DOI: 10.1007/s00894-023-05708-z] [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: 06/25/2023] [Accepted: 08/25/2023] [Indexed: 09/13/2023]
Abstract
Owing to the devise applications of molecules in industries, the bound state solution of the non-relativistic wave equation with a molecular potential function has been obtained in a closed-form using the Nikiforov-Uvarov method. The solutions of the bound state are then applied to study the information-theoretic measures such as the one-dimensional Shannon and Renyi entropic densities. The expectation values for the position and momentum spaces were obtained to verify the Heisenberg's uncertainty principle. Utilizing the energy spectrum equation, the thermodynamic vibrational partition function is obtained via the Poisson summation. Other thermodynamic function variations with absolute temperature have been obtained numerically for four diatomic molecules (H2, N2, O2, and HF) using Maple 18 software. The Shannon global entropic sum inequality has also been verified. The Renyi sum for constrained index parameters satisfies the global entropic inequality. The thermodynamic properties of the four molecules are similar and conform to works reported in the existing literature. The obtained vibrational energies are in fair agreement with the ones obtained using other forms of potential energy. The result further indicates that the lowest bounds for the Shannon, Renyi, and Heisenberg inequalities are ground states phenomena.
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Ejaz SA, Farid A, Zargar S, Channar PA, Aziz M, Wani TA, Attaullah HM, Ujhan R, Tehzeeb A, Saeed A, Ali HS, Erben MF. Computational and theoretical chemistry of newly synthesized and characterized 2,2 '-(5,5 '-(1,4-phenylene)bis(1H-tetrazole-5,1-diyl))bis-N-acetamides. BMC Chem 2023; 17:97. [PMID: 37580804 PMCID: PMC10426183 DOI: 10.1186/s13065-023-01011-3] [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: 04/08/2023] [Accepted: 08/01/2023] [Indexed: 08/16/2023] Open
Abstract
Energetic heterocycles, including pyridines, triazoles, and tetrazoles, exhibit greater density, heats of formation, and oxygen balance compared to their carbocyclic counterparts, making them a promising approach for synthesizing novel bis-tetrazole acetamides. Synthesized compounds A-F, some of which feature a chlorine atom attached to the phenyl ring, serve as valuable synthons for aryl coupling reactions. Analysis via 1H-NMR and 13C-NMR spectroscopy, as well as density functional considerations through B3LYP functional correlation with 6-311 + + G(d) and 6-31G(d) basis set, revealed the observed LUMO/HOMO energies and charge transfer within the molecule. Additionally, the dipole moment, chemical hardness, softness, ionization potential, local reactivity potential via Fukui indices and thermodynamic properties (entropy, enthalpy, and Gibbs free energy) of the molecule were calculated through density functional theory studies. In addition, Molecular Docking studies were conducted to investigate the anti-cancer potential of synthesized heterocyclic compounds against caspase 3, NF-KAPPA-B and P53 protein. Molecular docking analysis demonstrated a potent interaction between 2,2'-(5,5'-(1,4-phenylene)bis(1H-tetrazole-5,1-diyl))bis-N-(2,4-dinitrophenyl) acetamides (6d) and TP53 and NF-KAPPA-B with binding energies of - 11.8 kJ/mol and - 10.9 kJ/mol for TP53 and NF-KAPPA-B, respectively. Similarly, 2,2'-(5,5'-(1,4-phenylene)bis(1H-tetrazole-5,1-diyl))bis-N-(2-chlorophenyl) acetamides (6f) exhibited a strong interaction with caspase-3 with binding energy of -10.0 kJ/mol, indicating their potential as therapeutic agents against these proteins. Furthermore, the findings of current study was further strengthen by 100 ns molecular dynamics (MD) simulations. Finally, theoretical studies of oxygen balance and nitrogen percentage suggest that these molecules can be utilized as energetic materials.
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Ali ML, Khan M, Al Asad MA, Rahaman MZ. Highly efficient and stable lead-free cesium copper halide perovskites for optoelectronic applications: A DFT based study. Heliyon 2023; 9:e18816. [PMID: 37576266 PMCID: PMC10415883 DOI: 10.1016/j.heliyon.2023.e18816] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Revised: 07/18/2023] [Accepted: 07/28/2023] [Indexed: 08/15/2023] Open
Abstract
Recently synthesized industrially significant perovskites C s 3 C u 2 X 5 (X = C l , B r , I ) are subjected to a density functional theory (DFT) investigation utilizing the CASTEP code. This study explores various physical features, including structural, optical, thermodynamic, elastic, mechanical, and electronic properties. There is a strong correlation between the optimized structure parameters and the existing experimental data, which demonstrates the reliability of our DFT-based computations. The band structure and density of states (TDOS and PDOS) analysis revealed that all the studied perovskites are direct band gap semiconductors, and C s 3 C u 2 B r 5 has the smallest band gap (2.092 eV). We also discussed the mechanical and cell stability using the Born stability criterion and formation energy, respectively. The mechanical and dynamic stability of each phase is confirmed by the analysis of the elastic constants. According to the computed values of Pugh's and Poisson's ratios as well as Cauchy's pressure, all of the studied compounds are ductile in nature. The study of density of states, total charge density, and Mulliken atomic populations reveal that all the compounds have complex bonding with both ionic and covalent properties. Finally, utilizing the elastic constant data, the Debye temperatures of C s 3 C u 2 C l 5 , C s 3 C u 2 B r 5 , and C s 3 C u 2 I 5 have been determined as 82.90 K, 100.00 K, and 80.70 K, respectively. The analysis of thermodynamics (relatively low values of both Θ D and K min ) as well as optical properties indicate that all the investigated materials have the potential to serve as thermal barrier coating (TBC) materials.
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Baaddi M, Chami R, Baalla O, Quaoubi SE, Saadi A, Omari LEH, Chafi M. The effect of strain on hydrogen storage characteristics in K 2NaAlH 6 double perovskite hydride through first principle method. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023:10.1007/s11356-023-27529-6. [PMID: 37198364 DOI: 10.1007/s11356-023-27529-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/17/2023] [Accepted: 05/05/2023] [Indexed: 05/19/2023]
Abstract
Today, hydrogen is one of the most credible options for a non-polluting, carbon-free energy carrier. Hydrogen can be obtained or produced by different means from different renewable energy sources and can be stored in solid, liquid, or gaseous form. Storing hydrogen in complex hydrides in solid form is one of the most efficient methods of storage because they are secure, offer high hydrogen capacity, and demand optimal functioning conditions. Complex hydrides give a large gravimetric capacity that allows large amounts of hydrogen to be stored. This study examined the effects of triaxial strains on hydrogen storage properties of the perovskite-type compound K2NaAlH6. The analysis was conducted through first principle calculations using the full potential linearized augmented plane wave (FP-LAPW) approach. Our results indicate that the formation energy and desorption temperature of K2NaAlH6 hydride were improved under a maximum triaxial compressive strains of ε ≈ - 5%. Specifically, the values of formation energy and desorption temperature were - 40.14 kJ/mol.H2 and 308.72 K, respectively, compared to the original values of - 62.98 kJ/mol.H2 and 484.52 K. In addition, the analysis of the densities of states showed that changes in the dehydrogenation and structural properties of K2NaAlH6 were closely linked to the Fermi level value of the total densities of states. These findings provide valuable insights into the potential of K2NaAlH6 as a hydrogen storage material.
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Radmand S, Rezaei H, Zhao H, Rahimpour E, Jouyban A. Solubility and thermodynamic study of deferiprone in propylene glycol and ethanol mixture. BMC Chem 2023; 17:37. [PMID: 37061696 PMCID: PMC10105955 DOI: 10.1186/s13065-023-00950-1] [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: 11/21/2022] [Accepted: 04/05/2023] [Indexed: 04/17/2023] Open
Abstract
This work aims to obtain the solubility, density and thermodynamic parameters of deferiprone in propylene glycol and ethanol. For this purpose, a shake-flask technique was applied for solid-liquid equilibration and the spectrophotometry method was employed for solubility measurement. Solubility and density of deferiprone in non-aqueous mixtures of propylene glycol and ethanol were measured in the temperatures 293.2-313.2 K. Some equations including van't Hoff, the Jouyban-Acree, the Jouyban-Acree-van't Hoff, the mixture response surface and modified Wilson equations were used for the mathematical data modeling. The apparent thermodynamic parameters of the deferiprone dissolution process were computed and reported.
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Maldonado AS, Faccio R, Ramos SB. Structure and size-dependent vibrational and thermal properties of Ni clusters: A systematic ab initio approach. J Mol Graph Model 2023; 121:108445. [PMID: 36907014 DOI: 10.1016/j.jmgm.2023.108445] [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: 11/06/2022] [Revised: 02/23/2023] [Accepted: 02/26/2023] [Indexed: 03/06/2023]
Abstract
There is scarce information on the vibrational and thermal properties of small Ni clusters. Here, the outcomes of ab initio spin-polarized density functional theory calculations on the size and geometry effects upon the vibrational and thermal properties of Nin (n = 13 and 55) clusters, are discussed. For theses clusters a comparison is presented between the closed shell symmetric octahedral (Oh) and the icosahedral (Ih) geometries. The results indicate that the Ih isomers are lower in energy. Besides, ab initio molecular dynamics runs at T = 300K show that Ni13 and Ni55 clusters transform from their initial Oh geometries towards the corresponding Ih ones. For Ni13, we also consider the lowest energy less symmetric layered 1-3-6-3 structure, and the cuboid, recently observed experimentally for Pt13, which is competitive in energy but is unstable, as phonon analysis reveals. We calculate their vibrational density of states (νDOS) and heat capacity, and compare with the Ni FCC bulk counterpart. The characteristic features of the νDOS curves of these clusters are interpreted in terms of the clusters' sizes, the interatomic distance contractions, the bond order values as well as the internal pressure and strains of the clusters. We find that the softest possible frequency of the clusters is size and structure-dependent, being the smallest for the Oh ones. We identify mostly shear, tangential type displacements involving mainly surface atoms for the lowest frequency of the spectra of both Ih and Oh isomers. For the maximum frequencies of these clusters the central atom shows anti-phase movements against groups of nearest neighbor atoms. An excess of heat capacity at low temperatures with respect to the bulk is found, while at high temperatures a constant limiting value, close but lower to the Dulong and Petit value, is determined.
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Complexation of anthocyanins, betalains and carotenoids with biopolymers: An approach to complexation techniques and evaluation of binding parameters. Food Res Int 2023; 163:112277. [PMID: 36596187 DOI: 10.1016/j.foodres.2022.112277] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2022] [Revised: 11/22/2022] [Accepted: 11/27/2022] [Indexed: 12/05/2022]
Abstract
Natural pigments are bioactive compounds that can present health-promoting bioactivities in the human body. Due to their strong coloring properties, these compounds have been widely used as color additives as an alternative to artificial colorants. However, since these pigments are unstable under certain conditions, such as the presence of light, oxygen, and heat, the use of complexation and encapsulation techniques with biopolymers is in demand. Moreover, some functional properties can be achieved by using natural pigments-biopolymers complexes in food matrices. The complexation and encapsulation of natural pigments with biopolymers consist of forming a complex with the aim to make these compounds less susceptible to oxidative and degrading agents, and can also be used to improve their solubility in different media. This review aims to discuss different techniques that have been used over the last years to create natural pigment-biopolymers complexes, as well as the recent advances, limitations, effects, and possible applications of these complexes in foods. Moreover, the understanding of thermodynamic parameters between natural pigments and biopolymers is very important regarding the complex formation and their use in food systems. In this sense, thermodynamic techniques that can be used to determine binding parameters between natural pigments and potential wall materials, as well as their applications, advantages, and limitations are presented in this work. Several studies have shown an improvement in many aspects regarding the use of these complexes, including increased thermal and storage stability. Nonetheless, data regarding the biological effects on the human body and the sensory acceptance of natural pigments-biopolymers complexes in food systems are scarce in the literature.
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Dhobi SH, Nakarmi JJ, Yadav K, Gupta SP, Koirala B, Shah AK. Study of thermodynamics of a thermal electron in scattering. Heliyon 2022; 8:e12315. [PMID: 36578386 PMCID: PMC9791797 DOI: 10.1016/j.heliyon.2022.e12315] [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: 10/15/2022] [Revised: 11/08/2022] [Accepted: 12/06/2022] [Indexed: 12/14/2022] Open
Abstract
This work presents the study of the thermodynamic properties of thermal electrons participating in scattering events. This is necessary because scattering with a thermal electron in presence of a laser field was not studied yet and it reduces the complexity of event measurement (differential cross-section). To study thermodynamic properties, the authors model the thermal Hamiltonian in presence of a laser field and used it to study the thermodynamic properties using the partition function. The study shows thermodynamic energy, around the target with distance at field amplitude 0.1 a.u. to 0.9 a.u. has destructive interference, above field amplitude 1 a.u. to 2.5 a.u. has superposition and at field amplitude 2.5 a.u. and 3 a.u. have coulomb potential like nature. Also, thermodynamic energy with temperature was found constant except at field amplitude 2.5 a.u. and at field amplitude 2.5 a.u. destructive interference at 10 °C and 21 °C. The thermodynamical potential at field amplitude 0.1 to 3.5 a.u. found constant and above field amplitude 3.5 a.u. increased linearly when studied with respect to temperature at 10 Å . The thermal Hamiltonian increase sharply when thermal electrons enter in 1-5 Å , slowly in 5-10 Å and beyond 10 Å constant, and the thermal Hamiltonian nature is like coulomb potential.
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Li G, Li J, Tan W, Yang M, Wang H, Wang X. Effectiveness and mechanisms of the adsorption of carbendazim from wastewater onto commercial activated carbon. CHEMOSPHERE 2022; 304:135231. [PMID: 35688193 DOI: 10.1016/j.chemosphere.2022.135231] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2022] [Revised: 05/27/2022] [Accepted: 06/02/2022] [Indexed: 06/15/2023]
Abstract
The wide application of fungicides is becoming one of the main causes of water pollution. Activated carbon (AC) is a frequently-used adsorbent in water treatment. In this work, aiming to obtain a better understanding of fungicides on AC, carbendazim was selected as a model fungicide in water. The effects of AC dosage, adsorption temperature, adsorption time and pH value of solution on carbendazim adsorption by AC were investigated. When the initial concentration of carbendazim was 500 mg L-1 and the volume of wastewater was 25 mL, the optimum dosage of AC and reaction time was determined to be 0.3 g and 150 min, respectively. The pH ranging from 3.0 to 10.0 exhibited little effect on the adsorption capability of AC. The higher the adsorption temperature was, the better adsorption capacity was. Adsorption capacity could reach 32.31 mg g-1 under the optimal adsorption conditions. The kinetics study reveals that the adsorption of carbendazim occurred on the surface of adsorbent during initial stage. The adsorption data was well fitted by Langmuir adsorption isotherm, indicating that the adsorption process was monolayer adsorption. The thermodynamic experiments confirmed that the adsorption of carbendazim was an endothermic process with the coexistence of physical and chemical adsorption. Because the main components of AC used in this research work is amorphous carbon with low impurity and its surface has not been modified with additional functional groups, the conclusion of the study was easy to be replicated by repeated experiments. Therefore, the findings of this study could guide the adsorption of carbendazim onto the other kinds of AC with high specific surface area, and provide useful information for application of commercial AC in treatment of fungicides wastewater.
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Physico-chemical parameters of phase separation of the mixture of BSA and triton X 100 in aqueous solutions of monohydroxy compounds. Int J Biol Macromol 2022; 222:181-187. [PMID: 36150566 DOI: 10.1016/j.ijbiomac.2022.09.169] [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: 09/06/2022] [Revised: 09/15/2022] [Accepted: 09/19/2022] [Indexed: 11/21/2022]
Abstract
Clouding behavior and thermodynamic properties for the TX 100 + BSA mixture were investigated in aqueous and aq. alcoholic media. In an aqueous environment, the values of cloud point (CP), at which a clear solution becomes cloudy, for TX 100 decreases with augmentation of the concentration of BSA. The reverse result was obtained in the aq. alcoholic media. In this study, we have used ethanol (EtOH), 1-propanol (1-PrOH), and 2-butanol (2-BuOH) as alcohols. The changes of CP values in alcoholic media have been obtained in the following order: CPH2O+EtOH > CPH2O+2-BuOH > CPH2O+1-PrOH. The standard free energy (∆Gco), standard enthalpy (∆Hco), and standard entropy (∆Sco) changes of clouding were derived at CP. The ΔGc0 values of TX 100 + BSA decreases in the aqueous and alcoholic media with increasing the concentration of BSA and alcohol. This process becomes endothermic in the aq. alcoholic media. Different thermodynamic properties of transfer and entropy-enthalpy compensation parameters for the phase partitioning of the TX 100 + BSA mixture have been calculated and assessed properly.
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Onyenegecha C, Njoku I, Opara A, Echendu O, Omoko E, Eze F, Okereke C, Onyeocha E, Nwaneho F. Nonrelativistic solutions of Schrödinger equation and thermodynamic properties with the proposed modified Mobius square plus Eckart potential. Heliyon 2022; 8:e08952. [PMID: 35243073 PMCID: PMC8860922 DOI: 10.1016/j.heliyon.2022.e08952] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/16/2021] [Revised: 11/25/2021] [Accepted: 02/09/2022] [Indexed: 11/30/2022] Open
Abstract
We obtain solutions of Schrödinger equation for the modified Mobius square plus Eckart (MMPSE) potential via the formula method. Numerical results are reported. In addition, the partition function Z and other thermodynamic properties such as vibrational free energy, F, vibrational internal energy, U, vibrational entropy, S, and vibrational specific heat, C are presented. We also discuss special cases of this potential. Our result is consistent with previous studies in the literature.
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Onyenegecha CP, El Anouz K, Opara AI, Njoku IJ, Okereke CJ, El Allati A. Nonrelativistic treatment of inversely quadratic Hellmann-Kratzer potential and thermodynamic properties. Heliyon 2021; 7:e08617. [PMID: 34988316 PMCID: PMC8695294 DOI: 10.1016/j.heliyon.2021.e08617] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2021] [Revised: 11/08/2021] [Accepted: 12/14/2021] [Indexed: 11/24/2022] Open
Abstract
The study presents approximate analytical solutions of the Schrödinger equation with a newly proposed potential model called Inversely Quadratic Hellmann-Kratzer potential (IQHKP). This potential is a superposition of Inversely Quadratic Hellman potential and Kratzer potential. The energy eigenvalues and corresponding wavefunction are calculated via the formula method. We applied our results to evaluate thermodynamic functions such as vibrational free energy, F, vibrational internal energy, U, vibrational entropy, S, and vibrational specific heat, C. We also reported special cases of importance.
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Onyenegecha CP, Njoku IJ, Omame A, Okereke CJ, Onyeocha E. Dirac equation and thermodynamic properties with the Modified Kratzer potential. Heliyon 2021; 7:e08023. [PMID: 34611561 PMCID: PMC8477218 DOI: 10.1016/j.heliyon.2021.e08023] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2021] [Revised: 09/02/2021] [Accepted: 09/15/2021] [Indexed: 11/06/2022] Open
Abstract
In this work, we present the analytical solutions of Dirac equation for modified Kratzer potential in the pseudospin and spin symmetry limits using the formula method. The energies of the pseudospin and spin symmetry limit are obtained analytically and numerically. The numerical values are compared with those obtained in literature. Furthermore, we study the thermodynamic properties of some diatomic molecules within the nonrelativistic spin symmetry limits.
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