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Atif M, Barhoumi A, Syed A, Bahkali AH, Chafi M, Tounsi A, Zeroual A, Paray BA, Wang S, El Idrissi M. ADME Study, Molecular Docking, Elucidating the Selectivities and the Mechanism of [4 + 2] Cycloaddition Reaction Between (E)-N ((dimethylamino)methylene)benzothioamide and (S)-3-acryloyl-4-phenyloxazolidin-2-one. Mol Biotechnol 2024:10.1007/s12033-024-01105-w. [PMID: 38456961 DOI: 10.1007/s12033-024-01105-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2023] [Accepted: 01/29/2024] [Indexed: 03/09/2024]
Abstract
The molecular electron density theory (MEDT) was employed to examine the [4 + 2] cycloaddition reaction between (E)-N-((dimethylamino)methylene)benzothioamide (1) and (S)-3-acryloyl-4-phenyloxazolidin-2-one (2) at the B3LYP/6-311++G(d,p) design level. Parr functions and energy studies clearly show that this reaction is regio- and stereoselective, in perfect agreement with experimental results. By evaluating the chemical mechanism in terms of bond evolution theory (BET) and electron localization function (ELF), which divulges a variety of variations in the electron density along the reaction path, a single-step mechanism with highly asynchronous transition states structures was revealed. Additionally, we conducted a docking study on compounds P1, P2, P3, and P4 in the SARS-CoV-2 main protease (6LU7) in comparison to Nirmatrelvir. Our findings provide confirmation that product P4 may serve as a potent antiviral drug.
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Affiliation(s)
- Mhamed Atif
- Laboratoire de Génie Environnemental, Ecologique et Agro-Industriel, Faculty of Science and Techniques of Beni Mellal, Sultan Moulay Slimane University, Beni Mellal, Morocco
| | - Ali Barhoumi
- Molecular Modelling and Spectroscopy Research Team, Faculty of Science, Chouaïb Doukkali University, P.O. Box 20, 24000, El Jadida, Morocco
| | - Asad Syed
- Department of Botany and Microbiology, College of Science, King Saud University, P.O. Box 2455, 11451, Riyadh, Saudi Arabia
| | - Ali H Bahkali
- Department of Botany and Microbiology, College of Science, King Saud University, P.O. Box 2455, 11451, Riyadh, Saudi Arabia
| | - Mohammed Chafi
- LIPE, Higher School of Technology, Hassan II University of Casablanca, B.P 8012, Oasis, Morocco
| | - Abdessamad Tounsi
- Laboratoire de Génie Environnemental, Ecologique et Agro-Industriel, Faculty of Science and Techniques of Beni Mellal, Sultan Moulay Slimane University, Beni Mellal, Morocco
| | - Abdellah Zeroual
- Molecular Modelling and Spectroscopy Research Team, Faculty of Science, Chouaïb Doukkali University, P.O. Box 20, 24000, El Jadida, Morocco.
| | - Bilal Ahamad Paray
- Department of Zoology, College of Science, King Saud University, PO Box 2455, 11451, Riyadh, Saudi Arabia
| | - Shifa Wang
- School of Electronic and Information Engineering, Chongqing Three Gorges University, Wanzhou, Chongqing, 404000, China
| | - Mohammed El Idrissi
- Team of Chemical Processes and Applied Materials, Faculty Polydisciplinary, Sultan Moulay Slimane University, Beni-Mellal, Morocco.
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Barhoumi A, Ryachi K, Belghiti ME, Chafi M, Tounsi A, Syed A, Idrissi ME, Wong LS, Zeroual A. Chromatography Scrutiny, Molecular Docking, Clarifying the Selectivities and the Mechanism of [3 + 2] Cycloloaddition Reaction between Linallol and Chlorobenzene-Nitrile-oxide. J Fluoresc 2023:10.1007/s10895-023-03411-z. [PMID: 37668770 DOI: 10.1007/s10895-023-03411-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: 07/07/2023] [Accepted: 08/23/2023] [Indexed: 09/06/2023]
Abstract
Employing the Molecular Electron Density Theory, [3 + 2] cycloaddition processes between 4-chlorobenzenenitrileoxide and linalool, have been applied using the DFT/B3LYP/6-311(d,p) method, activation, reaction energies and the reactivity indices are calculated. In an investigation of conceptual DFT indices, LIL-1 will contribute to this reaction as a nucleophile, whilst NOX-2 will participate as an electrophile. This cyclization is regio, chemo and stereospecific, as demonstrated by the reaction and activation energies, in clear agreement with the experiment's results, in addition, ELF analysis revealed that the mechanism for this cycloaddition occurs in two steps. Furthermore, a docking study was conducted on the products studied, and the interaction with the protein protease COVID-19 (PDB ID: 6LU7), our results indicate that the presence of the -OH group increases the affinity of these products, moreover, adsorption study by chromatography was made on silica gel as support; our outcome reveals that the -OH group creates an intramolecular hydrogen bond in the product P2, while in the product P3 will create a hydrogen bond with the silica gel which makes the two products P2 and P3 are very easy to separate by chromatography, this result is in excellent agreement with the Rf retention value. The study might provide a fundamental for developing natural anti-viral compound in promoting human health.
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Affiliation(s)
- Ali Barhoumi
- Molecular Modelling and Spectroscopy Research Team, Faculty of Science, Chouaïb Doukkali University, P.O. Box 20, 24000, El Jadida, Morocco
| | - Kamal Ryachi
- Agro-Industrial, Environmental and Ecological Processes Team, Faculty of Science and Techniques of Beni Mellal, Sultan Moulay Slimane University, Beni Mellal, Morocco
| | - Mohammed Elalaoui Belghiti
- Laboratory of Physical Chemistry of Materials, Ben M'Sick Faculty of Sciences, Hassan II University, Casablanca, Morocco
- Laboratory of Nernest Technology, 163 Willington Street, Sherbrooke, QC J1H5C7, Canada
| | - Mohammed Chafi
- LIPE, Higher School of Technology, Hassan II University, Casablanca, Morocco
| | - Abdessamad Tounsi
- Agro-Industrial, Environmental and Ecological Processes Team, Faculty of Science and Techniques of Beni Mellal, Sultan Moulay Slimane University, Beni Mellal, Morocco
| | - Asad Syed
- Department of Botany and Microbiology, College of Science, King Saud University, P.O. Box 2455, 11451, Riyadh, Saudi Arabia
| | - Mohammed El Idrissi
- Team of Chemical Processes and Applied Materials, Faculty Polydisciplinary, Sultan Moulay Slimane University, Beni-Mellal, Morocco.
| | - Ling Shing Wong
- Faculty of Health and Life Sciences, INTI International University, Putra Nilai, 71800, Nilai, Negeri Sembilan, Malaysia
| | - Abdellah Zeroual
- Molecular Modelling and Spectroscopy Research Team, Faculty of Science, Chouaïb Doukkali University, P.O. Box 20, 24000, El Jadida, Morocco
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Boutadghart T, Ghailane R. A molecular electron density theory study of asymmetric Diels-Alder [4 + 2] reaction's mechanism of furan with three substituted alkynes (5-R substituted-3-(3-(phenylsulfonyl)-propioloyl)-oxazolidin-2-one). J Mol Model 2023; 29:290. [PMID: 37612461 DOI: 10.1007/s00894-023-05665-7] [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: 01/17/2023] [Accepted: 07/13/2023] [Indexed: 08/25/2023]
Abstract
CONTEXT The [4 +2 ] cycloaddition reactions between furan and three substituted alkynes (5-R-substituted-3-(3-(phenylsulfonyl)-propioloyl)-oxazolidin-2-one) have been investigated using the MEDT approach. Reactivity indices, reaction pathways, and activation energies are calculated. In an investigation of conceptual DFT indices, furan acts as a nucleophile, while the three substituted alkynes (5-R-substituted-3-(3-(phenylsulfonyl)-propioloyl)-oxazolidin-2-one) function as electrophiles in this reaction. The cycloaddition is regioiselective, as demonstrated by the activation and reaction energies, in clear agreement with the experiment's results. Hetero Diels-Alder [4 + 2] cycloadditions occur following a non-concerted two stages one-step molecular mechanism. METHODS For the purpose of this study, all calculations were performed using the Gaussian 09 software. Optimization was achieved through Berny's computational gradient optimization method, employing the B3LYP functional and the 6-31G(d) basis set. Analysis of both local and global reactivity indices provided insights into the reactivity tendencies of the reactants, distinguishing between electrophilic and nucleophilic characteristics via Parr functions. Frequency calculations were employed to identify and characterize stationary points, with transition states indicated by a single imaginary frequency and positive values of all frequencies for reactants and product. The electron localization function (ELF) was investigated using the Multiwfn software within the context of topological analyses.
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Affiliation(s)
- Tarik Boutadghart
- Laboratory of Organic Chemistry, Catalysis and Environment, Unit of Theoretical Chemistry and Modeling, Faculty of Sciences, University of Ibn Tofail, Po Box 133, 14000, Kenitra, Morocco
| | - Rachida Ghailane
- Laboratory of Organic Chemistry, Catalysis and Environment, Unit of Theoretical Chemistry and Modeling, Faculty of Sciences, University of Ibn Tofail, Po Box 133, 14000, Kenitra, Morocco.
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Ouzebla D, Ourhriss N, Fadare OA, Belghiti ME, El Abdallaoui HEA, Zeroual A. Efficient Synthesis of Acyclic Nucleosides by N-Alkylation Using K2CO3 Supported with Natural Phosphate (K2CO3@NP) as Catalyst and Docking Study Against VIH. CHEMISTRY AFRICA 2022. [DOI: 10.1007/s42250-022-00528-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Ouahdi Z, Ourhriss N, Aitouna AO, Barhoumi A, Belghiti ME, Moubarik A, El Alaoui El Abdallaoui H, El Idrissi M, Zeroual A. Exploration of the mechanism, chemospecificity, regiospecificity and stereoselectivity of the cycloaddition reaction between 9α-hydroxyparthenolide and nitrilimine: MEDT study. Theor Chem Acc 2022. [DOI: 10.1007/s00214-022-02913-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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