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R S, Mahalakshmi S, Kumaran S, Kadaikunnan S, Abbas G, Muthu S. Structural, electronic, intermolecular interaction, reactivity, vibrational spectroscopy, charge transfer, Hirshfeld surface analysis, pharmacological and hydropathy plot on 5-Bromo nicotinic acid - Antiviral study (Hepatitis A, B, and C). Heliyon 2023; 9:e19965. [PMID: 37809934 PMCID: PMC10559560 DOI: 10.1016/j.heliyon.2023.e19965] [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: 07/28/2023] [Revised: 08/22/2023] [Accepted: 09/07/2023] [Indexed: 10/10/2023] Open
Abstract
The therapeutic properties of 5-Bromonicotinatic acid (5BNA) were studied for antiviral illnesses like Hepatitis A, Hepatitis B and Hepatitis C and the influence of electron-donating and electron-withdrawing properties of functional groups on the nicotinic acid was evaluated and represented in this study using the DFT approach. The molecular parameters were determined for both gases as well as for various solvent phases. The reactive areas in the compound are examined utilising Fukui analysis. The molecular interactions are accomplished by recognising the different types of bonding found in the compound using the AIM, ELF, LOL, RDG and IRI. Solvation investigations were demonstrated to have an influence on molecular orbital energy, ESP, UV-Vis and NLO analyses. Electron-hole, NBO and Hirshfeld investigations are used to investigate the transfer of charges and interactions inside the molecule. The method of vibrational spectroscopy (IR and Raman) is used to differentiate and identify the various types of vibrations displayed by the compound. The hydropathy plots for the proteins 2A4O, 6CWD and 2OC8 associated with Hepatitis A, Hepatitis B and Hepatitis C illustrate the disquiet and attraction of the amino acids towards the water.
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Affiliation(s)
- Sravanthi R
- Department of Physics, Ethiraj College for Women, Chennai, 600008, Tamil Nadu, India
- University of Madras, Chennai, 600005, Tamil Nadu, India
| | - S. Mahalakshmi
- Department of Physics, Ethiraj College for Women, Chennai, 600008, Tamil Nadu, India
| | - S. Kumaran
- Department of ECE, Saveetha Engineering College, Thandalam, Chennai, 602105, Tamil Nadu, India
| | - Shine Kadaikunnan
- Department of Botany and Microbiology, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Ghulam Abbas
- Institute of Inorganic Chemistry, Karlsruhe Institute of Technology, Engesserstr 15, 76131, Karlsruhe, Germany
| | - S. Muthu
- Department of Physics, Arignar Anna Govt. Arts College, Cheyyar, 604407, Tamil Nadu, India
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Chen C, Cao Y, Ali A, Toufouki S, Yao S. How to apply terpenoid-based deep eutectic solvents for removal of antibiotics and dyes from water: Theoretical prediction, experimental validation and quantum chemical evaluation. ENVIRONMENTAL RESEARCH 2023; 231:116180. [PMID: 37207731 DOI: 10.1016/j.envres.2023.116180] [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: 02/25/2023] [Revised: 04/11/2023] [Accepted: 05/15/2023] [Indexed: 05/21/2023]
Abstract
This study proposed a theoretical prediction method and mechanism investigation for the extraction of antibiotics and dyes from aqueous media using terpenoid-based deep eutectic solvents (DESs). Firstly, Conductor-like Screening Model for Real Solvents (COSMO-RS) approach was applied to predict selectivity, capacity and performance index in the extraction of 15 target compounds including antibiotics (tetracyclines, sulfonamides, quinolones, β-lactams) and dyes by 26 terpenoid-based DESs, and thymol-benzyl alcohol shows promising theoretical selectivity and extraction efficiency for the target compounds. Moreover, the structures of both hydrogen bond acceptors (HBA) and hydrogen bond donors (HBD) have an impact on the predicted extraction performance, which can be improved by tailoring those candidates with higher polarity, smaller molecular volume, shorter alkyl chain length and the presence of aromatic ring structures, etc. According to the predicted molecular interactions revealed by σ-profile and σ-potential, the DESs with HBD ability can promote the separation process. Furthermore, reliability of proposed prediction method was confirmed by experimental verification, indicating that the trends of theoretical extraction performance index were similar with the experimental results by using actual samples. At last, the extraction mechanism was evaluated by quantum chemical calculations based on visual presentations, thermodynamic calculations and topological properties; and the target compounds showed favorable energies of solvation to transfer from aqueous phase to DESs phase. The proposed method has been proved with potential to provide the efficient strategies and guidance for more applications (e.g., microextraction, solid phase extraction, adsorption) with similar molecular interactions of green solvents in environmental research.
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Affiliation(s)
- Chen Chen
- School of Chemical Engineering, Sichuan University, Chengdu, 610065, China
| | - Yu Cao
- College of Life Science & Biotechnology, Mianyang Teachers' College, Mianyang, 621000, China
| | - Ahmad Ali
- School of Chemical Engineering, Sichuan University, Chengdu, 610065, China
| | - Sara Toufouki
- School of Chemical Engineering, Sichuan University, Chengdu, 610065, China
| | - Shun Yao
- School of Chemical Engineering, Sichuan University, Chengdu, 610065, China.
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Merir R, Baitiche M, Elbahri Z, Bourzami R, Djerboua F, Boutahala M. Conception of Cellulose/Alginate/Mesalazine microspheres by solvent evaporation technique for drug release: Experimental and theoretical investigations. Int J Biol Macromol 2023:124894. [PMID: 37196720 DOI: 10.1016/j.ijbiomac.2023.124894] [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: 03/26/2023] [Revised: 04/24/2023] [Accepted: 05/12/2023] [Indexed: 05/19/2023]
Abstract
Preparation of microspheres containing Mesalazine referred to as 5-aminosalicylic acid (5-ASA) for colon targeting drug was carried out using the emulsion solvent evaporation technique. The formulation was based on 5-ASA as the active agent, sodium Alginate (SA) andEthylcellulose (EC) as encapsulating agents, with polyvinyl alcohol (PVA) as emulsifier. The effects ofthe following processing parameters, 5-ASA %, EC:SA ratio and stirring rate on the properties of the resulting products in the form microspheres were considered. The samples were characterized using Optical microscopy, SEM, PXRD, FTIR, TGA, and DTG. In vitro release of 5-ASA from the different batches of microspheres was tested in biologically simulated fluids, (gastric; SGF, pH 1.2 for 2 h), then (intestinal fluid SIF, pH 7.4for 12 h) at 37 °C. The release kinetic results have been treated mathematically relaying on Higuchi's and Korsmeyer-Peppas' models for drug liberation. DOE study was performed to evaluate the interactive effects of variables on the drug entrapment and microparticle sizes. Molecular chemical interactions in structures were optimized using DFT analysis.
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Affiliation(s)
- Roufaida Merir
- Laboratory of Multiphasic Polymeric Materials, Department of Process Engineering, Faculty of Technology, Ferhat Abbas Sétif 1University, 19000 Sétif, Algeria; Laboratory of Chemical Process Engineering, Department of Process Engineering, Faculty of Technology, Ferhat Abbas Sétif1University, 19000 Sétif, Algeria
| | - Milad Baitiche
- Laboratory of Multiphasic Polymeric Materials, Department of Process Engineering, Faculty of Technology, Ferhat Abbas Sétif 1University, 19000 Sétif, Algeria
| | - Zineb Elbahri
- Laboratory of Materials and Catalysis, Faculty of Exact Sciences, Djillali Liabes University, Sidi Bel Abbes 22000, Algeria
| | - Riadh Bourzami
- Research Unit on Emergent Materials, Ferhat Abbas Sétif1University, 19000 Sétif, Algeria
| | - Ferhat Djerboua
- Laboratory of Multiphasic Polymeric Materials, Department of Process Engineering, Faculty of Technology, Ferhat Abbas Sétif 1University, 19000 Sétif, Algeria
| | - Mokhtar Boutahala
- Laboratory of Chemical Process Engineering, Department of Process Engineering, Faculty of Technology, Ferhat Abbas Sétif1University, 19000 Sétif, Algeria.
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Ben Khemis I, Noureddine O, Smati H, Aouaini F, Ben Hadj Hassine S, Ben Lamine A. Advanced investigation of a putative adsorption process of nine non key food odorants (non-KFOs) on the broadly tuned human olfactory receptor OR2W1: Statistical physics modeling and molecular docking study. Int J Biol Macromol 2023; 233:123548. [PMID: 36758753 DOI: 10.1016/j.ijbiomac.2023.123548] [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: 12/09/2022] [Revised: 01/26/2023] [Accepted: 01/31/2023] [Indexed: 02/11/2023]
Abstract
In the present paper, statistical physics formalism was used to understand the olfactory perception via the investigation of dose-olfactory response curves of a putative adsorption process of nine non key food odorants (non-KFOs) on the broadly tuned human olfactory receptor OR2W1, in order to quantitative characterize the interactions between the nine studied non-KFOs, i. e., furfuryl sulfide, furfuryl disulfide, benzyl methyl disulfide, furfuryl methyl disulfide, benzyl methyl sulfide, 1-phenylethanethiol, benzyl mercaptan, furfuryl methyl sulfide and 3-phenylpropanol molecules and OR2W1 binding sites at a molecular level. Two advanced adsorption models have been proposed: the advanced monolayer monoenergy model (monolayer model with identical and independent olfactory receptor binding sites) (Model 1) and the advanced monolayer model with two independent types of olfactory receptor binding sites (Model 2). It was concluded that the monolayer monoenergy model was selected as the most adequate model to fit the experimental dose-olfactory response curves tabulated in literature. Actually, the numerical values of the three fitted physico-chemical parameters (RM1, n and C1) were obtained by a non-linear regression. Indeed, modeling results suggested that the number of docked non-KFOs per OR2W1 binding site n values (1.24 < n < 1.94) was always superior to 1, which indicated the non-parallel orientation of the studied odorants on the olfactory receptor and the multi-molecular adsorption mechanism. The estimated molar adsorption energy ΔEa values (ranged from 6.07 to 12.16 kJ/mol) for the nine olfactory systems confirmed the physical the exothermic characters of the adsorption process since ΔEa values were lower than 40 kJ/mol and positive. Furthermore, these estimated parameters were applied to characterize stereographically and energetically the interaction between the nine non-KFOs and OR2W1 through the determination of the human receptor binding site size distributions (RSDs) and the adsorption energy distributions (AEDs), which were spread out from 0.25 to 6.50 nm and from 0 to 22.50 kJ/mol, respectively. The docking computation between these nine non-KFOs and OR2W1 proved that the estimated binding affinities were belonged to the adsorption energies spectrum in general and the specific adsorption energy band or the molecular vibration modes limited spectrum (between 2.50 kJ/mol and 17 kJ/mol) (approximate olfactory band).
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Affiliation(s)
- Ismahene Ben Khemis
- Laboratory of Quantum and Statistical Physics LR 18 ES 18, Faculty of Sciences of Monastir, Environnement Street, 5019 Monastir, Tunisia.
| | - Olfa Noureddine
- Laboratory of Quantum and Statistical Physics LR 18 ES 18, Faculty of Sciences of Monastir, Environnement Street, 5019 Monastir, Tunisia
| | - Houda Smati
- Laboratory of Quantum and Statistical Physics LR 18 ES 18, Faculty of Sciences of Monastir, Environnement Street, 5019 Monastir, Tunisia
| | - Fatma Aouaini
- Department of Physics, College of Science, Princess Nourah bint Abdulrahman University, P.O. Box 84428, Riyadh 11671, Saudi Arabia
| | - Siwar Ben Hadj Hassine
- Department of Computer Science, College of Science and Arts at Muhayel, King Khalid University, Saudi Arabia
| | - Abdelmottaleb Ben Lamine
- Laboratory of Quantum and Statistical Physics LR 18 ES 18, Faculty of Sciences of Monastir, Environnement Street, 5019 Monastir, Tunisia
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Steffy AD, Dhas DA, Joe IH, Gunasekaran B, Vinitha G. EXPERIMENTAL AND THEORETICAL INVESTIGATION ON PIPERAZINE-1,4-DIIUM BIS (2,5-DICHLOROPHENOXYACETATE) SINGLE CRYSTAL: A POTENTIAL CANDIDATE FOR NONLINEAR OPTICAL APPLICATIONS. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2023.135520] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/09/2023]
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6
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Chukwuemeka K, Louis H, Benjamin I, Nyong PA, Ejiofor EU, Eno EA, Manicum ALE. Therapeutic Potential of B 12N 12-X (X = Au, Os, and Pt) Nanostructured as Effective Fluorouracil (5Fu) Drug Delivery Materials. ACS APPLIED BIO MATERIALS 2023; 6:1146-1160. [PMID: 36802290 DOI: 10.1021/acsabm.2c00986] [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: 02/23/2023]
Abstract
In view of the research-substantiated comparative efficiency of nontoxic and bioavailable nanomaterials synergic with human systems for drug delivery, this work was aimed at studying the comparative efficiency of transition metal (Au, Os, and Pt)-decorated B12N12 nanocages in the adsorption of fluorouracil (5Fu), an antimetabolite-classed anticarcinogen administered for cancers of the breast, colon, rectum, and cervix. Three different metal-decorated nanocages interacted with 5Fu drug at the oxygen (O) and fluorine (F) sites, resulting in six adsorbent-adsorbate systems whose reactivity and sensitivity were investigated using density functional theory computation at the B3LYP/def2TZVP level of theory with special emphasis on the structural geometry, electronic, and topology analysis as well as the thermodynamic properties of the systems. While the electronic studies predicted Os@F as having the lowest and most favorable Egp and Ead of 1.3306 eV and -11.9 kcal/mol, respectively, the thermodynamic evaluation showed Pt@F to have the most favorable thermal energy (E), heat capacity (Cp), and entropy (ΔS) values as well as negative ΔH and ΔG while the adsorption studies showed that the greatest degree of chemisorption with Ead magnitude of -204.5023 kcal/mol was observed in energies ranging from -12.0 to 138.4 kcal/mol with Os@F and Au@F at the lower and upper borders. The quantum theory of atoms in molecules results show that the six systems had noncovalent interactions as well as a certain degree of partial covalency but none showed covalent interaction while the noncovalent interaction analysis corroborated this by showing that the six systems had favorable interactions, though of varying degrees, with very little trace of steric hindrance or electrostatic interactions. Overall, the study showed that notwithstanding the good performance of the six adsorbent systems considered, the Pt@F and Os@F showed the most favorable potential for the delivery of 5Fu.
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Affiliation(s)
- Kelechi Chukwuemeka
- Department of Chemical Sciences, Clifford University, Owerrinta 00000, Nigeria
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar 540211, Nigeria
| | - Hitler Louis
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar 540211, Nigeria
- Department of Pure and Applied Chemistry, Faculty of Physical Sciences, University of Calabar, Calabar 540211, Nigeria
| | - Innocent Benjamin
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar 540211, Nigeria
- Department of Microbiology, Faculty of Biological Sciences, University of Calabar, Calabar 540211, Nigeria
| | - Peter A Nyong
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar 540211, Nigeria
| | - Emmanuel U Ejiofor
- Department of Chemical Sciences, Clifford University, Owerrinta 00000, Nigeria
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar 540211, Nigeria
| | - Ededet A Eno
- Computational and Bio-Simulation Research Group, University of Calabar, Calabar 540211, Nigeria
- Department of Pure and Applied Chemistry, Faculty of Physical Sciences, University of Calabar, Calabar 540211, Nigeria
| | - Amanda-Lee E Manicum
- Department of Chemistry, Tshwane University of Technology, Pretoria 0001, South Africa
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7
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Synthesis, Empirical and Theoretical Investigations on New Histaminium Bis(Trioxonitrate) Compound. Molecules 2023; 28:molecules28041931. [PMID: 36838921 PMCID: PMC9958629 DOI: 10.3390/molecules28041931] [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: 02/03/2023] [Revised: 02/13/2023] [Accepted: 02/14/2023] [Indexed: 02/22/2023] Open
Abstract
In this paper, a novel hybrid material, entitled histaminium bis(trioxonitrate), with the general chemical formula (C5H11N3)(NO3)2, denoted by HTN was presented. Single-crystal X-ray diffraction was used to determine the structural characteristics of this compound after it was made using a slow evaporation method at room temperature. This compound was elaborated and crystallized to the monoclinic system with space group P21/c, and the lattice parameters obtained were: a = 10.4807 (16)Å, b = 11.8747 (15)Å, c = 16.194 (2)Å, β = 95.095 (6)°, V = 2007.4 (5)Å3 and Z = 8. The title compound's atomic structure couldbe modeled as a three-dimensional network. Organic cations and nitrate anions were connected via N-H...O and C-H...O hydrogen bonds in the HTN structure. The intermolecular interactions responsible for the formation of crystal packing were evaluated using Hirshfeld surfaces and two-dimensional fingerprint plots. The compound's infrared spectrum, which ranged from 4000 to 400 cm-1, confirmed the presence of the principal bands attributed to the internal modes of the organic cation and nitrate anions. Additionally, spectrofluorimetry and the ultraviolet-visible spectrum was used to investigate this compound. DFT calculations were used to evaluate the composition and properties of HTN. The energy gap, chemical reactivity and crystal stability of HTN were quantified by performing HOMO-LUMO frontier orbitals analysis. Topological analysis (AIM), Reduced Density Gradient (RDG), molecular electrostatic potential surface (MEPS) and Mulliken population were processed to determine the types of non-covalent interactions, atomic charges and molecular polarity in detail.
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Synthesis, spectra, crystal, DFT, molecular docking and in vitro cholinesterase inhibition evaluation on two novel symmetrical Azine Schiff Bases. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2023.135171] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/16/2023]
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9
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Reddy GN, Losetty V, Hazarathaiah Yadav C. Synthesis of Novel Schiff Base Metal Complexes and their Spectroscopic Characterization, Biological Activity and Molecular Docking Investigation. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2023.135161] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/17/2023]
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10
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Integrative Ligand-Based Pharmacophore Modeling, Virtual Screening, and Molecular Docking Simulation Approaches Identified Potential Lead Compounds against Pancreatic Cancer by Targeting FAK1. Pharmaceuticals (Basel) 2023; 16:ph16010120. [PMID: 36678617 PMCID: PMC9912262 DOI: 10.3390/ph16010120] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Revised: 11/16/2022] [Accepted: 11/22/2022] [Indexed: 01/15/2023] Open
Abstract
Pancreatic cancer is a very deadly disease with a 5-year survival rate, making it one of the leading causes of cancer-related deaths globally. Focal adhesion kinase 1 (FAK1) is a ubiquitously expressed protein in pancreatic cancer. FAK, a tyrosine kinase that is overexpressed in cancer cells, is crucial for the development of tumors into malignant phenotypes. FAK functions in response to extracellular signals by triggering transmembrane receptor signaling, which enhances focal adhesion turnover, cell adhesion, cell migration, and gene expression. The ligand-based drug design approach was used to identify potential compounds against the target protein, which included molecular docking: ADME (absorption, distribution, metabolism, and excretion), toxicity, molecular dynamics (MD) simulation, and molecular mechanics generalized born surface area (MM-GBSA). Following the retrieval of twenty hits, four compounds were selected for further evaluation based on a molecular docking approach. Three newly discovered compounds, including PubChem CID24601203, CID1893370, and CID16355541, with binding scores of -10.4, -10.1, and -9.7 kcal/mol, respectively, may serve as lead compounds for the treatment of pancreatic cancer associated with FAK1. The ADME (absorption, distribution, metabolism, and excretion) and toxicity analyses demonstrated that the compounds were effective and nontoxic. However, further wet laboratory investigations are required to evaluate the activity of the drugs against the cancer.
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Jaziri E, Louis H, Gharbi C, Lefebvre F, Kaminsky W, Agwamba EC, Egemonye TC, Unimuke TO, Ikenyirimba OJ, Mathias GE, Nasr CB, Khedhiri L. Investigation of crystal structures, spectral (FT-IR and NMR) analysis, DFT, and molecular docking studies of novel piperazine derivatives as antineurotic drugs. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2023.134937] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
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12
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El Amri A, Kadiri L, Hsissou R, Lebkiri A, Wardighi Z, Rifi EH, Lebkiri A. Investigation of Typha Latifolia (TL) as potential biosorbent for removal of the methyl orange anionic dye in the aqueous solution. Kinetic and DFT approaches. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2022.134098] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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13
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Gannouni A, Tahri W, Roisnel T, Riadh K. X-ray diffraction, IR spectrum, optical properties, AIM, NBO, RDG, HS, Fukui function, biological and molecular docking analysis of a novel hybrid compound (C9H15N3)[CuCl4(H2O)]. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2022.134094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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14
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Vincy CD, George J, Tarika JDD, Balachandar S, Shihab NK, Beaula TJ. Bioactive Small Molecule, Piperazinium Bis(4-Hydroxybenzenesulphonate) upon Spectral Investigation, Hirshfeld Surface Analysis, Molecular Docking and ADMET Prediction: A Complement DFT Calculations. Polycycl Aromat Compd 2022. [DOI: 10.1080/10406638.2022.2150658] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/05/2022]
Affiliation(s)
- C. Dabora Vincy
- Department of Physics and Research Centre, Malankara Catholic College, Mariagiri, India
| | - Jesby George
- Department of Physics, St. Dominic’s College Kanjirapally, Parathode, India
| | - J. D. Deephlin Tarika
- Department of Physics and Research Centre, Malankara Catholic College, Mariagiri, India
| | - S. Balachandar
- Department of Chemistry, Vivekanandha College of Arts and Sciences for Women (Autonomous), Namakkal, India
| | - N. K. Shihab
- Department of Physics, TKM College of Engineering, Kollam, India
| | - T. Joselin Beaula
- Department of Physics and Research Centre, Malankara Catholic College, Mariagiri, India
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Steffy AD, Arul Dhas D, Hubert Joe I. Nonlinear optical activity of piperazine-1,4-diium bis(sulfanilate) compound. COMPUT THEOR CHEM 2022. [DOI: 10.1016/j.comptc.2022.113896] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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16
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Medimagh M, Ben Mleh C, Issaoui N, Kazachenko AS, Roisnel T, Al-Dossary OM, Marouani H, Bousiakoug LG. DFT and Molecular Docking Study of the Effect of a Green Solvent (water and DMSO) on the Structure, MEP, and FMOs of the 1-Ethylpiperazine-1,4-diium bis(hydrogenoxalate) Compound. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.120851] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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17
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Ramalingam A, Mustafa N, Chng WJ, Medimagh M, Sambandam S, Issaoui N. 3-Chloro-3-methyl-2,6-diarylpiperidin-4-ones as Anti-Cancer Agents: Synthesis, Biological Evaluation, Molecular Docking, and In Silico ADMET Prediction. Biomolecules 2022; 12:biom12081093. [PMID: 36008987 PMCID: PMC9406097 DOI: 10.3390/biom12081093] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2022] [Revised: 07/28/2022] [Accepted: 08/03/2022] [Indexed: 01/18/2023] Open
Abstract
Piperidine pharmacophore-containing compounds have demonstrated therapeutic efficacy against a range of diseases and are now being investigated in cancer. A series of 3-chloro-3-methyl-2,6-diarylpiperidin-4-ones, compounds (I–V) were designed and synthesized for their evaluation as a potential anti-cancer agent. Compounds II and IV reduced the growth of numerous hematological cancer cell lines while simultaneously increasing the mRNA expression of apoptosis-promoting genes, p53 and Bax. Molecular docking analyses confirmed that compounds can bind to 6FS1, 6FSO (myeloma), 6TJU (leukemia), 5N21, and 1OLL (NKTL). Computational ADMET research confirmed the essential physicochemical, pharmacokinetic, and drug-like characteristics of compounds (I–V). The results revealed that these compounds interact efficiently with active site residues and that compounds (II) and (V) can be further evaluated as potential therapeutic candidates.
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Affiliation(s)
- Arulraj Ramalingam
- Department of Electrical and Computer Engineering, National University of Singapore, Singapore 117583, Singapore
- Correspondence: (A.R.); (W.J.C.)
| | - Nurulhuda Mustafa
- Department of Medicine, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore
| | - Wee Joo Chng
- Department of Medicine, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore
- Cancer Science Institute of Singapore, National University of Singapore, Singapore 117599, Singapore
- Department of Haematology-Oncology, National University Cancer Institute of Singapore, National University Health System, Singapore 119228, Singapore
- Correspondence: (A.R.); (W.J.C.)
| | - Mouna Medimagh
- Laboratory of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, University of Monastir, Monastir 5079, Tunisia
| | - Sivakumar Sambandam
- Research and Development Centre, Bharathiar University, Coimbatore 641046, India
- BPJ College of Arts and Science, Kozhai, Srimushnam 608703, India
| | - Noureddine Issaoui
- Laboratory of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, University of Monastir, Monastir 5079, Tunisia
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18
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Ramalingam A, Mustafa N, Chng WJ, Medimagh M, Sambandam S, Issaoui N. 3-Chloro-3-methyl-2,6-diarylpiperidin-4-ones as Anti-Cancer Agents: Synthesis, Biological Evaluation, Molecular Docking, and In Silico ADMET Prediction. Biomolecules 2022. [DOI: doi.org/10.3390/biom12081093] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
Abstract
Piperidine pharmacophore-containing compounds have demonstrated therapeutic efficacy against a range of diseases and are now being investigated in cancer. A series of 3-chloro-3-methyl-2,6-diarylpiperidin-4-ones, compounds (I–V) were designed and synthesized for their evaluation as a potential anti-cancer agent. Compounds II and IV reduced the growth of numerous hematological cancer cell lines while simultaneously increasing the mRNA expression of apoptosis-promoting genes, p53 and Bax. Molecular docking analyses confirmed that compounds can bind to 6FS1, 6FSO (myeloma), 6TJU (leukemia), 5N21, and 1OLL (NKTL). Computational ADMET research confirmed the essential physicochemical, pharmacokinetic, and drug-like characteristics of compounds (I–V). The results revealed that these compounds interact efficiently with active site residues and that compounds (II) and (V) can be further evaluated as potential therapeutic candidates.
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KÜÇÜK C, YURDAKUL S, CELİK S, ERDEM B. Experimental and DFT studies of 2-Methyl-quinoxaline and its Silver (I) complex: Non-covalent interaction analysis, antimicrobial activity and molecular docking study. INORG CHEM COMMUN 2022. [DOI: 10.1016/j.inoche.2022.109935] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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Maruthupandi M, Stairish MJ, Sahila S, Vasimalai N. Ultrasensitive and selective detection of cadmium ions in hair, nail, cigarette and waste water samples using disulfo-stilbenediamine capped silver nanoparticles. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.133798] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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21
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[MerDABCO-BSA][HSO4]2: A novel polymer supported Brønsted acidic ionic liquid catalyst for the synthesis of biscoumarins and ortho-aminocarbonitriles. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.132622] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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22
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Sangeetha P, Sangeetha R, Mullainathan S, Irfan A, Sevvanthi S, Muthu S. Molecular docking evaluation and spectroscopic study of 2-amino-1,4-benzenedisulfonic acid using the IEFPCM model, electronic properties of different solvents. J INDIAN CHEM SOC 2022. [DOI: 10.1016/j.jics.2022.100543] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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23
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Al-Otaibi JS, Mary YS, Mary S, Trivedi R, Chakraborty B, Yadav R, Celik I, Soman S. DFT and MD investigations of the biomolecules of phenothiazine derivatives: interactions with gold and water molecules and investigations in search of effective drug for SARS-CoV-2. J Biomol Struct Dyn 2022:1-12. [PMID: 35470781 DOI: 10.1080/07391102.2022.2068649] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Abstract
Theoretical analyses of two phenothiazine derivatives, 10-[3-(dimethylamino)-2-methylpropyl]phenothiazine-2-carbonitrile (CYM) and 2-[4-[3-(2-chlorophenothiazin-10-yl)propyl]piperazin-1-yl]ethanol (PAZ) are reported using density functional theory (DFT) and molecular dynamics (MD) simulations. Spectroscopic studies, different electronic and chemical parameters are predicted. Red and yellow in electrostatic potential plot is in rings and oxygen atom in PAZ and C≡N and rings in CYM are sensitive to nucleophilic attacks. The blue in hydrogen atoms refer to electrophilic attack in both PAZ and CYM. Stability of the protein-ligand complex formed with these derivatives and angiotensin-converting enzyme 2 (ACE2) was investigated using MD simulation. Radius of gyration of C-alpha atom of 6VW1 displayed the conformational convergence toward a compact structure leading to stable 6VW1-ligand complex which are also in agreement with root mean square fluctuation (RMSF) values. Localized area predicts reactive sites for Au and H2O molecules interaction with these compounds for further practical applications. Charge density is localized on both molecules and also tries to move toward Au-Au dimer and water molecule and such they are expected to contribute to the sensing performance. Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Jamelah S Al-Otaibi
- Department of Chemistry, College of Science, Princess Nourah bint Abdulrahman University, Riyadh, Saudi Arabia
| | | | | | - Ravi Trivedi
- Department of Physics, Indian Institute of Technology, Mumbai, India
| | - Brahmananda Chakraborty
- High Pressure and Synchrotron Radiation Physics Division, Bhabha Atomic Research Centre, Mumbai, India.,Homi Bhabha National Institute, Mumbai, India
| | - Rohitash Yadav
- Department of Pharmacology, All India Institute of Medical Sciences, Rishikesh, India
| | - Ismail Celik
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Erciyes University, Kayseri, Turkey
| | - Sreejit Soman
- Stemskills Research and Education Lab Private Limited, Faridabad, Hariyana, India
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Synthesis, crystal structure, spectroscopic, antidiabetic, antioxidant and computational investigations of Ethyl 5-hydroxy-1-isonicotinoyl-3-methyl-4,5-dihydro-1H-pyrazole-5-carboxylate. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2021.131977] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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25
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Elhusseiny AF, El-Dissouky A, Mautner F, Tawfik EM, El-Sayed DS. An insight into non-covalent interactions in binary, ternary and quaternary copper (II) complexes: Synthesis, X-ray structure, DFT calculations, antimicrobial activity and molecular docking studies. Inorganica Chim Acta 2022. [DOI: 10.1016/j.ica.2021.120748] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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26
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Sagaama A, Issaoui N, Bardak F, Al-Dossary O, Kazachenko AS, Karrouchi K, Atac A, Wojcik MJ. Non covalent interactions analysis and spectroscopic characterization combined with molecular docking study of N′-(4-Methoxybenzylidene)-5-phenyl-1H-pyrazole-3-carbohydrazide. JOURNAL OF KING SAUD UNIVERSITY - SCIENCE 2022. [DOI: 10.1016/j.jksus.2021.101778] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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27
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Deciphering non-covalent interactions of 1,3-Benzenedimethanaminium bis(trioxonitrate): Synthesis, empirical and computational study. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2021.131720] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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28
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Aali E, Gholizadeh M, Noroozi-Shad N. 1-Disulfo-[2,2-bipyridine]-1,1-diium chloride ionic liquid as an efficient catalyst for the green synthesis of 5-substituted 1H-tetrazoles. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2021.131289] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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29
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Harzallah M, Medimagh M, Issaoui N, Roisnel T, Brahim A. Synthesis, X-ray crystal structure, Hirshfeld surface analysis, DFT, AIM, ELF, RDG and molecular docking studies of bis[4-(dimethylamino)pyridinium]di-µ-chlorido-bis[dichloridomercurate(II)]. J COORD CHEM 2021. [DOI: 10.1080/00958972.2021.2006649] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
Affiliation(s)
- Mouna Harzallah
- Laboratory of Physico-chemistry of Materials LR01ES19, Faculty of Sciences, University of Monastir, Monastir, Tunisia
- Department of chemistry, Faculty of Sciences, University of Gabes, Zrig Eddakhlania, Tunisia
| | - Mouna Medimagh
- Laboratory of Quantum and Statistical Physics, Faculty of Sciences, University of Monastir, Monastir, Tunisia
| | - Noureddine Issaoui
- Laboratory of Quantum and Statistical Physics, Faculty of Sciences, University of Monastir, Monastir, Tunisia
| | - Thierry Roisnel
- Centre de Diffractométrie X, Institut des Sciences Chimiques de Rennes, UMR 6226, CNRS-Universitéde Rennes 1, Campus de Beaulieu, Rennes Cedex, France
| | - Ayed Brahim
- Laboratory of Physico-chemistry of Materials LR01ES19, Faculty of Sciences, University of Monastir, Monastir, Tunisia
- Research Unit of Analysis and Process Applied to the Environment (UR17ES32)-ISSAT Mahdia, University of Monastir, Monastir, Tunisia
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Kazachenko A, Akman F, Medimagh M, Issaoui N, Vasilieva N, Malyar YN, Sudakova IG, Karacharov A, Miroshnikova A, Al-Dossary OM. Sulfation of Diethylaminoethyl-Cellulose: QTAIM Topological Analysis and Experimental and DFT Studies of the Properties. ACS OMEGA 2021; 6:22603-22615. [PMID: 34514232 PMCID: PMC8427635 DOI: 10.1021/acsomega.1c02570] [Citation(s) in RCA: 36] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/17/2021] [Accepted: 08/12/2021] [Indexed: 01/18/2023]
Abstract
Sulfated cellulose derivatives are biologically active substances with anticoagulant properties. In this study, a new sulfated diethylaminoethyl (DEAE)-cellulose derivative has been obtained. The effect of a solvent on the sulfation process has been investigated. It is shown that 1,4-dioxane is the most effective solvent, which ensures the highest sulfur content in DEAE-cellulose sulfate under sulfamic acid sulfation. The processes of sulfamic acid sulfation in the presence of urea in 1,4-dioxane and in a deep eutectic solvent representing a mixture of sulfamic acid and urea have been compared. It is demonstrated that the use of 1,4-dioxane yields the sulfated product with a higher sulfur content. The obtained sulfated DEAE-cellulose derivatives have been analyzed by Fourier transform infrared spectroscopy, X-ray diffractometry, and scanning electron and atomic force microscopy, and the degree of their polymerization has been determined. The introduction of a sulfate group has been confirmed by the Fourier transform infrared spectroscopy data; the absorption bands corresponding to sulfate groups have been observed in the ranges of 1247-1256 and 809-816 cm-1. It is shown that the use of a deep eutectic solvent leads to the side carbamation reactions. Amorphization of DEAE-cellulose during sulfation has been demonstrated using X-ray diffractometry. The geometric structure of a molecule in the ground state has been calculated using the density functional theory with the B3LYP/6-31G(d, p) basis set. The reactive areas of DEAE-cellulose and its sulfated derivatives have been analyzed using molecular electrostatic potential maps. The thermodynamic parameters (heat capacity, entropy, and enthalpy) of the target sulfation products have been determined. The HOMO-LUMO energy gap, Mulliken atomic charges, and electron density topology of the title compound have been calculated within the atoms in molecule theory.
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Affiliation(s)
- Aleksandr Kazachenko
- Institute
of Chemistry and Chemical Technology, Krasnoyarsk Science Center,
Siberian Branch, Russian Academy of Sciences, Akademgorodok, 50/24, Krasnoyarsk 660036, Russia
- Siberian
Federal University, pr.
Svobodny, 79, Krasnoyarsk 660041, Russia
| | - Feride Akman
- Vocational
School of Food, Agriculture and Livestock, University of Bingöl, Bingöl 12000, Turkey
| | - Mouna Medimagh
- Laboratory
of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, University of Monastir, Monastir 5079, Tunisia
| | - Noureddine Issaoui
- Laboratory
of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, University of Monastir, Monastir 5079, Tunisia
| | - Natalya Vasilieva
- Institute
of Chemistry and Chemical Technology, Krasnoyarsk Science Center,
Siberian Branch, Russian Academy of Sciences, Akademgorodok, 50/24, Krasnoyarsk 660036, Russia
- Siberian
Federal University, pr.
Svobodny, 79, Krasnoyarsk 660041, Russia
| | - Yuriy N. Malyar
- Institute
of Chemistry and Chemical Technology, Krasnoyarsk Science Center,
Siberian Branch, Russian Academy of Sciences, Akademgorodok, 50/24, Krasnoyarsk 660036, Russia
- Siberian
Federal University, pr.
Svobodny, 79, Krasnoyarsk 660041, Russia
| | - Irina G. Sudakova
- Institute
of Chemistry and Chemical Technology, Krasnoyarsk Science Center,
Siberian Branch, Russian Academy of Sciences, Akademgorodok, 50/24, Krasnoyarsk 660036, Russia
| | - Anton Karacharov
- Institute
of Chemistry and Chemical Technology, Krasnoyarsk Science Center,
Siberian Branch, Russian Academy of Sciences, Akademgorodok, 50/24, Krasnoyarsk 660036, Russia
| | - Angelina Miroshnikova
- Institute
of Chemistry and Chemical Technology, Krasnoyarsk Science Center,
Siberian Branch, Russian Academy of Sciences, Akademgorodok, 50/24, Krasnoyarsk 660036, Russia
- Siberian
Federal University, pr.
Svobodny, 79, Krasnoyarsk 660041, Russia
| | - Omar Marzook Al-Dossary
- Department
of Physics and Astronomy, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
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31
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Study of supramolecular self-assembly of pyridone and dihydropyridone co-crystal: Synthesis, crystal structure, Hirshfeld surface, DFT and molecular docking studies. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2021.130214] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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32
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Prasad HN, Ananda A, Najundaswamy S, Nagashree S, Mallesha L, Dayananda B, Jayanth H, Mallu P. Design, synthesis and molecular docking studies of novel piperazine metal complexes as potential antibacterial candidate against MRSA. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2021.130047] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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33
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Daghar C, Issaoui N, Roisnel T, Dorcet V, Marouani H. Empirical and computational studies on newly synthesis cyclohexylammonium perchlorate. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129820] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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34
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Synthesis, X-ray, spectroscopy, molecular docking and DFT calculations of (E)-N'-(2,4-dichlorobenzylidene)-5-phenyl-1H-pyrazole-3-carbohydrazide. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129714] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
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35
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Quantum chemical calculations, spectroscopic properties and molecular docking studies of a novel piperazine derivative. JOURNAL OF KING SAUD UNIVERSITY - SCIENCE 2021. [DOI: 10.1016/j.jksus.2020.101283] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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36
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Karrouchi K, Brandán SA, Sert Y, Karbane ME, Radi S, Ferbinteanu M, Garcia Y, Ansar M. Synthesis, structural, molecular docking and spectroscopic studies of (E)-N'-(4-methoxybenzylidene)-5-methyl-1H-pyrazole-3-carbohydrazide. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129072] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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37
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Daoui S, Baydere C, Akman F, Kalai FE, Mahi L, Dege N, Topcu Y, Karrouchi K, Benchat N. Synthesis, X-ray crystallography, vibrational spectroscopy, thermal and DFT studies of (E)-6-(4-methylstyryl)-4,5-dihydropyridazin-3(2H)-one. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129180] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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38
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Noureddine O, Issaoui N, Medimagh M, Al-Dossary O, Marouani H. Quantum chemical studies on molecular structure, AIM, ELF, RDG and antiviral activities of hybrid hydroxychloroquine in the treatment of COVID-19: Molecular docking and DFT calculations. JOURNAL OF KING SAUD UNIVERSITY SCIENCE 2021; 33:101334. [PMID: 33432258 PMCID: PMC7787522 DOI: 10.1016/j.jksus.2020.101334] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 12/05/2020] [Revised: 12/21/2020] [Accepted: 12/25/2020] [Indexed: 01/18/2023]
Abstract
Structure-activity relationships for hydroxychloroquine compound and its derivatives resulted in a potent antiviral activity. Where hydroxychloroquine derivatives showed an apparent efficacy against coronavirus related pneumonia. For this reason, the current study is focused on the structural properties of hydroxychloroquine and hydroxychloroquine sulfate. Optimized structures of these molecules have been reported by using DFT method at B3LYP/6-31G* level of theory. The geometric were determined and compared with the experimental crystal structure. The intra and intermolecular interactions which exist within these compounds are analyzed by different methods namely the topological analysis AIM, ELF and the reduced gradient of the density. These approaches make it possible in particular to study the properties of hydrogen bonds. The highest occupied molecular orbital and the lowest unoccupied molecular orbital energy levels are constructed and the corresponding frontier energy gaps are determined to realize the charge transfer within the molecule. The densities of state diagrams were determined to calculate contributions to the molecular orbitals. The molecular electrostatic potential surfaces are determined to give a visual representation of charge distribution of these ligands and to provide information linked to electrophilic and nucleophilic sites localization. Finally, these derivatives were evaluated for the inhibition of COVID-19 activity by using the molecular docking method.
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Affiliation(s)
- Olfa Noureddine
- University of Monastir, Laboratory of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, Monastir 5079, Tunisia
| | - Noureddine Issaoui
- University of Monastir, Laboratory of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, Monastir 5079, Tunisia
| | - Mouna Medimagh
- University of Monastir, Laboratory of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, Monastir 5079, Tunisia
| | - Omar Al-Dossary
- Department of Physics and Astronomy, College of Science, King Saud University, PO Box 2455, Riyadh 11451, Saudi Arabia
| | - Houda Marouani
- University of Carthage, Laboratory of Chemistry of Materials (LR13ES08), Faculty of Sciences of Bizerte, 7021, Tunisia
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39
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Kazachenko AS, Akman F, Sagaama A, Issaoui N, Malyar YN, Vasilieva NY, Borovkova VS. Theoretical and experimental study of guar gum sulfation. J Mol Model 2021; 27:5. [PMID: 33389146 DOI: 10.1007/s00894-020-04645-5] [Citation(s) in RCA: 37] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2020] [Accepted: 12/10/2020] [Indexed: 01/18/2023]
Abstract
The synthesis of guar gum sulfates by a complex of sulfur trioxide with 1,4-dioxane was studied. The influence of temperature, process duration, and the volume of chlorosulfonic acid on the degree of substitution of guar gum sulfates was studied. The sulfation process has been optimized using the Box-Behnken design. It was shown that the optimal conditions for sulfation of guar gum with a complex of sulfur trioxide-1.4-dioxane: temperature 60 °C, duration 2.9 h, and a volume of chlorosulfonic acid of 3.1 ml. Sulfate groups embedding into the structure of guar gum was confirmed by elemental analysis and FTIR. The initial and sulfated guar gum were also characterized by methods: X-ray diffraction, scanning electron microscopy, and gel permeation chromatography. Using X-ray diffraction, it was shown that amorphization of guar gum occurs during sulfation. Using scanning electron microscopy, it was shown that the morphology of guar gum changes in the process of sulfation. Using gel permeation chromatography, it was shown in the process of guar gum sulfation by a complex of sulfur trioxide with 1,4-dioxane, the molecular weight decreases from 600 to 176 kDa. The geometric parameters of all complexes were carried out by using the DFT/B3PW91 method with a 6-31 + G (d,p) basis set. These structures are optimized to predict the important properties of a theme. MEP with contour map has been performed to obtain the electronic properties. Frontier molecular orbital HOMO-LUMO orbital diagram has been obtained for different energy levels and their band gap energies have been computed.
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Affiliation(s)
- Aleksandr S Kazachenko
- Institute of Chemistry and Chemical Technology SB RAS, Federal Research Center "Krasnoyarsk Science Center SB RAS", Akademgorodok, 50/24, Krasnoyarsk, Russia, 660036. .,Siberian Federal University, Svobodny av., 79, Krasnoyarsk, Russia, 660041.
| | - Feride Akman
- Vocational School of Technical Sciences, University of Bingöl, 12000, Bingol, Turkey
| | - Abir Sagaama
- Laboratory of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, University of Monastir, 5079, Monastir, Tunisia
| | - Noureddine Issaoui
- Laboratory of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, University of Monastir, 5079, Monastir, Tunisia
| | - Yuriy N Malyar
- Institute of Chemistry and Chemical Technology SB RAS, Federal Research Center "Krasnoyarsk Science Center SB RAS", Akademgorodok, 50/24, Krasnoyarsk, Russia, 660036.,Siberian Federal University, Svobodny av., 79, Krasnoyarsk, Russia, 660041
| | - Natalya Yu Vasilieva
- Institute of Chemistry and Chemical Technology SB RAS, Federal Research Center "Krasnoyarsk Science Center SB RAS", Akademgorodok, 50/24, Krasnoyarsk, Russia, 660036.,Siberian Federal University, Svobodny av., 79, Krasnoyarsk, Russia, 660041
| | - Valentina S Borovkova
- Institute of Chemistry and Chemical Technology SB RAS, Federal Research Center "Krasnoyarsk Science Center SB RAS", Akademgorodok, 50/24, Krasnoyarsk, Russia, 660036.,Siberian Federal University, Svobodny av., 79, Krasnoyarsk, Russia, 660041
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40
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Synthesis, crystal structure, spectroscopic studies, NBO, AIM and SQMFF calculations of new pyridazinone derivative. J Mol Struct 2021. [DOI: 10.1016/j.molstruc.2020.129213] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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41
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Synthesis, crystal structure, hirshfeld surface analysis, DFT calculations, anti-diabetic activity and molecular docking studies of (E)-N’-(5-bromo-2-hydroxybenzylidene) isonicotinohydrazide. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.128800] [Citation(s) in RCA: 39] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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42
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Noureddine O, Issaoui N, Al-Dossary O. DFT and molecular docking study of chloroquine derivatives as antiviral to coronavirus COVID-19. JOURNAL OF KING SAUD UNIVERSITY SCIENCE 2020; 33:101248. [PMID: 33250604 PMCID: PMC7687412 DOI: 10.1016/j.jksus.2020.101248] [Citation(s) in RCA: 52] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/15/2020] [Revised: 11/02/2020] [Accepted: 11/18/2020] [Indexed: 01/18/2023]
Abstract
The recently emerged COVID-19 virus caused hundreds of thousands of deaths and instigated a widespread fear, threatening the world’s most advanced health security. In 2020, chloroquine derivatives are among the drugs tested against the coronavirus pandemic and showed an apparent efficacy. In the present work, the chloroquine and the chloroquine phosphate molecules have been proposed as potential antiviral for the treatment of COVID-19 diseases combining DFT and molecular docking calculations. Molecular geometries, electronic properties and molecular electrostatic potential were investigated using density functional theory (DFT) at the B3LYP/6-31G* method. As results, we found a good agreement between the theoretical and the experimental geometrical parameters (bond lengths and bond angles). The frontier orbitals analysis has been calculated at the same level of theory to determine the charge transfer within the molecule. In order to perform a better description of the FMOs, the density of states was determined. The molecular electrostatic potential maps were calculated to provide information on the chemical reactivity of molecule and also to describe the intermolecular interactions. All these studies help us a lot in determining the reactivity of the mentioned compounds. Finally, docking calculations were carried out to determine the pharmaceutical activities of the chloroquine derivatives against coronavirus diseases. The choice of these ligands was based on their antiviral activities.
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Affiliation(s)
- Olfa Noureddine
- University of Monastir, Laboratory of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, Monastir 5079, Tunisia
| | - Noureddine Issaoui
- University of Monastir, Laboratory of Quantum and Statistical Physics (LR18ES18), Faculty of Sciences, Monastir 5079, Tunisia
| | - Omar Al-Dossary
- Department of Physics and Astronomy, College of Science, King Saud University, PO Box 2455, Riyadh 11451, Saudi Arabia
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43
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Synthesis, X-ray structure, vibrational spectroscopy, DFT, biological evaluation and molecular docking studies of (E)-N’-(4-(dimethylamino)benzylidene)-5-methyl-1H-pyrazole-3-carbohydrazide. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.128541] [Citation(s) in RCA: 62] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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Jomaa I, Noureddine O, Gatfaoui S, Issaoui N, Roisnel T, Marouani H. Experimental, computational, and in silico analysis of (C8H14N2)2[CdCl6] compound. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.128186] [Citation(s) in RCA: 48] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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Synthesis, experimental, theoretical study and molecular docking of 1-ethylpiperazine-1,4-diium bis(nitrate). SOLID STATE SCIENCES 2020. [DOI: 10.1016/j.solidstatesciences.2020.106326] [Citation(s) in RCA: 39] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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Haddad B, Brandán SA, Assenine MA, Paolone A, Villemin D, Bresson S. Bidentate cation-anion coordination in the ionic liquid 1-ethyl-3-methylimidazolium hexafluorophosphate supported by vibrational spectra and NBO, AIM and SQMFF calculations. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.128104] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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Experimental and DFT studies on the molecular structure, spectroscopic properties, and molecular docking of 4-phenylpiperazine-1-ium dihydrogen phosphate. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.127762] [Citation(s) in RCA: 51] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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Tahenti M, Gatfaoui S, Issaoui N, Roisnel T, Marouani H. A tetrachlorocobaltate(II) salt with 2-amino-5-picolinium: Synthesis, theoretical and experimental characterization. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2020.127781] [Citation(s) in RCA: 38] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/18/2023]
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