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Bogoyavlenskiy A, Alexyuk M, Alexyuk P, Berezin V, Almalki FA, Ben Hadda T, Alqahtani AM, Ahmed SA, Dall'Acqua S, Jamalis J. Computer Analysis of the Inhibition of ACE2 by Flavonoids and Identification of Their Potential Antiviral Pharmacophore Site. Molecules 2023; 28:molecules28093766. [PMID: 37175179 PMCID: PMC10179817 DOI: 10.3390/molecules28093766] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2023] [Revised: 04/25/2023] [Accepted: 04/25/2023] [Indexed: 05/15/2023] Open
Abstract
In the present study, we investigated the antiviral activities of 17 flavonoids as natural products. These derivatives were evaluated for their in vitro antiviral activities against HIV and SARS-CoV-2. Their antiviral activity was evaluated for the first time based on POM (Petra/Osiris/Molispiration) theory and docking analysis. POM calculation was used to analyze the atomic charge and geometric characteristics. The side effects, drug similarities, and drug scores were also assumed for the stable structure of each compound. These results correlated with the experimental values. The bioinformatics POM analyses of the relative antiviral activities of these derivatives are reported for the first time.
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Affiliation(s)
- Andrey Bogoyavlenskiy
- Research and Production Center for Microbiology and Virology, Almaty 050010, Kazakhstan
| | - Madina Alexyuk
- Research and Production Center for Microbiology and Virology, Almaty 050010, Kazakhstan
| | - Pavel Alexyuk
- Research and Production Center for Microbiology and Virology, Almaty 050010, Kazakhstan
| | - Vladimir Berezin
- Research and Production Center for Microbiology and Virology, Almaty 050010, Kazakhstan
| | - Faisal A Almalki
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm Al-Qura University, Makkah 21955, Saudi Arabia
| | - Taibi Ben Hadda
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm Al-Qura University, Makkah 21955, Saudi Arabia
- Laboratory of Applied Chemistry & Environment, Faculty of Sciences, Mohammed Premier University, MB 524, Oujda 60000, Morocco
| | - Alaa M Alqahtani
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm Al-Qura University, Makkah 21955, Saudi Arabia
| | - Saleh A Ahmed
- Department of Chemistry, Faculty of Applied Science, Umm Al-Qura University, Makkah 21955, Saudi Arabia
| | - Stefano Dall'Acqua
- Department of Pharmaceutical and Pharmacological Sciences, University of Padova, Via Marzolo 5, 35121 Padova, Italy
| | - Joazaizulfazli Jamalis
- Department of Chemistry, Faculty of Science, Universiti Teknologi Malaysia, UTM, Johor Bahru 81310, Johor, Malaysia
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2
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Zadeh MMA, Rostami E, Farhadi A. An Extremely Productive and Sustainable Procedure for the Synthesis of 2,4,5-Trisubstituted Imidazoles Using Graphene Oxide-Substituted Sulfoacetic Acid Amide. RUSSIAN JOURNAL OF ORGANIC CHEMISTRY 2022. [DOI: 10.1134/s1070428022100153] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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3
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Anowar Hosen M, Sultana Munia N, Al-Ghorbani M, Baashen M, Almalki FA, Ben Hadda T, Ali F, Mahmud S, Abu Saleh M, Laaroussi H, Kawsar SMA. Synthesis, antimicrobial, molecular docking and molecular dynamics studies of lauroyl thymidine analogs against SARS-CoV-2: POM study and identification of the pharmacophore sites. Bioorg Chem 2022; 125:105850. [PMID: 35533581 PMCID: PMC9065685 DOI: 10.1016/j.bioorg.2022.105850] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2022] [Revised: 04/21/2022] [Accepted: 04/28/2022] [Indexed: 12/02/2022]
Abstract
Nucleoside precursors and nucleoside analogs occupy an important place in the treatment of viral respiratory pathologies, especially during the current COVID-19 pandemic. From this perspective, the present study has been designed to explore and evaluate the synthesis and spectral characterisation of 5́-O-(lauroyl) thymidine analogs 2–6 with different aliphatic and aromatic groups through comprehensive in vitro antimicrobial screening, cytotoxicity assessment, physicochemical aspects, molecular docking and molecular dynamics analysis, along with pharmacokinetic prediction. A unimolar one-step lauroylation of thymidine under controlled conditions furnished the 5́-O-(lauroyl) thymidine and indicated the selectivity at C-5́ position and the development of thymidine based potential antimicrobial analogs, which were further converted into four newer 3́-O-(acyl)-5́-O-(lauroyl) thymidine analogs in reasonably good yields. The chemical structures of the newly synthesised analogs were ascertained by analysing their physicochemical, elemental, and spectroscopic data. In vitro antimicrobial tests against five bacteria and two fungi, along with the prediction of activity spectra for substances (PASS), indicated promising antibacterial functionality for these thymidine analogs compared to antifungal activity. In support of this observation, molecular docking experiments have been performed against the main protease of SARS-CoV-2, and significant binding affinities and non-bonding interactions were observed against the main protease (6LU7, 6Y84 and 7BQY), considering hydroxychloroquine (HCQ) as standard. Moreover, the 100 ns molecular dynamics simulation process was performed to monitor the behaviour of the complex structure formed by the main protease under in silico physiological conditions to examine its stability over time, and this revealed a stable conformation and binding pattern in a stimulating environment of thymidine analogs. Cytotoxicity determination confirmed that compounds were found less toxic. Pharmacokinetic predictions were investigated to evaluate their absorption, distribution, metabolism and toxic properties, and the combination of pharmacokinetic and drug-likeness predictions has shown promising results in silico. The POM analysis shows the presence of an antiviral (O1δ-, O2δ-) pharmacophore site. Overall, the current study should be of great help in the development of thymidine-based, novel, multiple drug-resistant antimicrobial and COVID-19 drugs.
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Affiliation(s)
- Mohammed Anowar Hosen
- Laboratory of Carbohydrate and Nucleoside Chemistry, Department of Chemistry, Faculty of Science, University of Chittagong, Chittagong 4331, Bangladesh
| | - Nasrin Sultana Munia
- Laboratory of Carbohydrate and Nucleoside Chemistry, Department of Chemistry, Faculty of Science, University of Chittagong, Chittagong 4331, Bangladesh
| | - Mohammed Al-Ghorbani
- Department of Chemistry, Faculty of Science and Arts, Ulla, Taibah University, Medina, Saudi Arabia
| | - Mohammed Baashen
- Department of Chemistry, Science and Humanities College, Shaqra University, Saudi Arabia
| | - Faisal A Almalki
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm Al-Qura University, 21955 Makkah, Saudi Arabia
| | - Taibi Ben Hadda
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm Al-Qura University, 21955 Makkah, Saudi Arabia; Laboratory of Applied Chemistry & Environment, Faculty of Sciences, Mohammed Premier University, MB 524, 60000 Oujda, Morocco
| | - Ferdausi Ali
- Department of Microbiology, Faculty of Biological Science, University of Chittagong, V, Bangladesh
| | - Shafi Mahmud
- Microbiology Laboratory, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh
| | - Md Abu Saleh
- Microbiology Laboratory, Department of Genetic Engineering and Biotechnology, University of Rajshahi, Rajshahi 6205, Bangladesh
| | - Hamid Laaroussi
- Laboratory of Applied Chemistry & Environment, Faculty of Sciences, Mohammed Premier University, MB 524, 60000 Oujda, Morocco
| | - Sarkar M A Kawsar
- Laboratory of Carbohydrate and Nucleoside Chemistry, Department of Chemistry, Faculty of Science, University of Chittagong, Chittagong 4331, Bangladesh.
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Synthesis, structural confirmation, antibacterial properties and bio-informatics computational analyses of new pyrrole based on 8-hydroxyquinoline. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.132683] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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5
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Synthesis, characterization and bioactivity of novel 8-hydroxyquinoline derivatives: Experimental, molecular docking, DFT and POM analyses. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2022.132688] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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6
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Chalkha M, Nakkabi A, Hadda TB, Berredjem M, Moussaoui AE, Bakhouch M, Saadi M, Ammari LE, Almalki FA, Laaroussi H, Jevtovic V, Yazidi ME. Crystallographic study, biological assessment and POM/Docking studies of pyrazoles-sulfonamide hybrids (PSH): Identification of a combined Antibacterial/Antiviral pharmacophore sites leading to in-silico screening the anti-Covid-19 activity. J Mol Struct 2022; 1267:133605. [PMID: 35782312 PMCID: PMC9237569 DOI: 10.1016/j.molstruc.2022.133605] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/20/2022] [Revised: 06/03/2022] [Accepted: 06/27/2022] [Indexed: 01/14/2023]
Abstract
The discovery and development of new potent antimicrobial and antioxidant agents is an essential lever to protect living beings against pathogenic microorganisms and free radicals. In this regard, new functionalized pyrazoles have been synthesized using a simple and accessible approach. The synthesized aminobenzoylpyrazoles 3a-h and pyrazole-sulfonamides 4a-g were obtained in good yields and were evaluated in vitro for their antimicrobial and antioxidant activities. The structures of the synthesized compounds were determined using IR, NMR, and mass spectrometry. The structure of the compound 4b was further confirmed by single crystal X-ray diffraction. The results of the in vitro screening show that the synthesized pyrazoles 3 and 4 exhibit a promising antimicrobial and antioxidant activities. Among the tested compounds, pyrazoles 3a, 3f, 4e, 4f, and 4g have exhibited remarkable antimicrobial activity against some microorganisms. In addition, compounds 3a, 3c, 3e, 4a, 4d, 4f, and 4g have shown a significant antioxidant activity in comparison with the standard butylhydroxytoluene (BHT). Hence, compounds 3a, 4f, and 4g represent interesting dual acting antimicrobial and antioxidant agents. In fact, pyrazole derivatives bearing sulfonamide moiety (4a-g) have displayed an important antimicrobial activity compared to pyrazoles 3a-h, this finding could be attributed to the synergistic effect of the pyrazole and sulfonamide pharmacophores. Furthermore, Molecular docking results revealed a good interaction of the synthesized compounds with the target proteins and provided important information about their interaction modes with the target enzyme. The results of the POM bioinformatics investigations (Petra, Osiris, Molinspiration) show that the studied heterocycles present a very good non toxicity profile, an excellent bioavailability, and pharmacokinetics. Finally, an antiviral pharmacophore (O δ−, O δ−) was evaluated in the POM investigations and deserves all our attention to be tested against Covid-19 and its Omicron and Delta mutants.
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Affiliation(s)
- Mohammed Chalkha
- Engineering Laboratory of Organometallic and Molecular Materials and Environment (LIMOME), Faculty of Sciences Dhar El Mahraz, Sidi Mohamed Ben Abdellah University, P.O. Box 1796, Atlas, Fez, 30000, Morocco
| | - Asmae Nakkabi
- Engineering Laboratory of Organometallic and Molecular Materials and Environment (LIMOME), Faculty of Sciences Dhar El Mahraz, Sidi Mohamed Ben Abdellah University, P.O. Box 1796, Atlas, Fez, 30000, Morocco
- Laboratoire de Chimie des Matériaux et Biotechnologie des Produits Naturels, Faculté des Sciences, Université Moulay Ismail, BP 11201, Meknes 50000, Morocco
| | - Taibi Ben Hadda
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm Al-Qura University, Makkah 21955, Saudi Arabia
- Laboratory of Applied Chemistry & Environment, Faculty of Sciences, Mohammed Premier University, MB 524, Oujda 60000, Morocco
| | - Malika Berredjem
- Laboratoire de chimie organique appliquée (LCOA), Groupe de Synthèse de biomolécules et modélisation moléculaire, Université Badji-Mokhtar Annaba, BP 12, Annaba 23000, Algérie
| | - Abdelfattah El Moussaoui
- Laboratory of Biotechnology, Environment, Agri-Food, and Health (LBEAS), Faculty of Sciences, University Sidi Mohamed Ben Abdellah (USMBA), Fez 30050, Morocco
| | - Mohamed Bakhouch
- Laboratory of Bioorganic Chemistry, Department of Chemistry, Faculty of Sciences, Chouaïb Doukkali University, El Jadida 24000, Morocco
| | - Mohamed Saadi
- Laboratoire de Chimie Appliquée des Matériaux, Centres des Sciences des Matériaux, Faculty of Science, Mohammed V University, Avenue Ibn Battouta, BP. 1014, 100090 Rabat, Morocco
| | - Lahcen El Ammari
- Laboratoire de Chimie Appliquée des Matériaux, Centres des Sciences des Matériaux, Faculty of Science, Mohammed V University, Avenue Ibn Battouta, BP. 1014, 100090 Rabat, Morocco
| | - Faisal A Almalki
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm Al-Qura University, Makkah 21955, Saudi Arabia
| | - Hamid Laaroussi
- Laboratory of Applied Chemistry & Environment, Faculty of Sciences, Mohammed Premier University, MB 524, Oujda 60000, Morocco
| | - Violeta Jevtovic
- Department of Chemistry, College of Science, University of Hail, Hail 81451, Saudi Arabia
| | - Mohamed El Yazidi
- Engineering Laboratory of Organometallic and Molecular Materials and Environment (LIMOME), Faculty of Sciences Dhar El Mahraz, Sidi Mohamed Ben Abdellah University, P.O. Box 1796, Atlas, Fez, 30000, Morocco
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7
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Esharkawy ER, Almalki F, Hadda TB. In vitro potential antiviral SARS-CoV-19- activity of natural product thymohydroquinone and dithymoquinone from Nigella sativa. Bioorg Chem 2022; 120:105587. [PMID: 35026560 PMCID: PMC8719923 DOI: 10.1016/j.bioorg.2021.105587] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2021] [Revised: 12/19/2021] [Accepted: 12/26/2021] [Indexed: 12/12/2022]
Abstract
Inflammation, oxidation, and compromised immunity all increase the dangers of COVID-19, whereas many pharmaceutical protocols may lead to increased immunity such as ingesting from sources containing vitamin E and zinc. A global search for natural remedies to fight COVID-19 has emerged, to assist in the treatment of this infamous coronavirus. Nigella satvia is a world-renowned plant, an esteemed herbal remedy, which can be used as a liquid medicine to increase immunity while decreasing the dangers of acute respiratory distress syndrome. Thymoqinone (TQ), dithymoqinone (DTQ) and thymohydroquinone (THQ), are major compounds of the essential oil contained in N.sativa. A current study aims to discover the antiviral activity of two compounds, Thymohydroquinone and Dithymoquinone, which are synthesized through simple chemical procedures, deriving from thymoquinone, which happens to be a major compound of Nigella sativa. A half-maximal cytotoxic concentration, “CC50”, was calculated by MTT assay for each individual drug, The sample showed anti-SARS-CoV-2 activity at non-cytotoxic nanomolar concentrations in vitro with a low selectivity index (CC50/IC50 = 31.74/23.15 = 1.4), whereby Dimthymoquinone shows high cytotoxicity.
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8
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Lafridi H, Almalki FA, Ben Hadda T, Berredjem M, Kawsar SMA, Alqahtani AM, Esharkawy ER, Lakhrissi B, Zgou H. In silico evaluation of molecular interactions between macrocyclic inhibitors with the HCV NS3 protease. Docking and identification of antiviral pharmacophore site. J Biomol Struct Dyn 2022; 41:2260-2273. [PMID: 35075979 DOI: 10.1080/07391102.2022.2029571] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
An array of computational approaches DFT/QSAR/POM methods has been used for a better understanding of drug properties regarding 13 inhibitor derivatives containing either P2 cyclopentane P1 carboxylic acid moiety (1-9) or a P1 cyclopropyl acyl sulfonamide (10-13). To further recognize binding interactions and their activity trends, molecular docking studies were carried out with the use of HCV, which can be used to accurately predict the interactions of ligands with the receptor. The QSAR models are developed through the use of Multiple Linear Regression (MLR) together with Principal Component Analysis (PCA) methods. The statistical results indicate the multiple correlation coefficient R2 = 0.840, which shows favorable estimation stability, as well as showing a significant correlation between the HCV NS3 protease of the studied compounds and their electron-accepting ability. The POM analysis of the Physico-chemical properties of compounds 1-13, shows that they are bearing (O1, O2) and/or (O1, O2, O3) antiviral pockets, whereby all oxygen atoms are Osp2 and bearing negative charges. Similar to the reference ligand (F9K), the most active compound 10 was bound deeply into the binding cavity of NS3 protease making interactions with the residues Gly137, His57, Ala157, and His528. The anti-hepatitis pharmacophore site is similar to the anti-HIV pharmacophore site.
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Affiliation(s)
- Hind Lafridi
- Material Sciences, Processes, Environment and Modeling, Faculty of Sciences, Ibn Zohr University, Agadir, Morocco.,Polydisciplinary Faculty, Ibn Zohr University, Ouarzazate, Morocco
| | - Faisal A Almalki
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm AlQura University, Makkah, Saudi Arabia
| | - Taibi Ben Hadda
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm AlQura University, Makkah, Saudi Arabia.,Laboratory of Applied Chemistry and Environment, Faculty of Sciences, Mohammed Premier University, Oujda, Morocco
| | - Malika Berredjem
- Laboratory of Applied Organic Chemistry LCOA, Synthesis of Biomolecules and Molecular Modelling Group, Badji-Mokhtar - Annaba University, Annaba, Algeria
| | - Sarkar M A Kawsar
- Laboratory of Carbohydrate and Nucleoside Chemistry (LCNC), Department of Chemistry, Faculty of Science, University of Chittagong, Chittagong, Bangladesh
| | - Ali M Alqahtani
- Department of Pharmacology, College of Pharmacy, King Khalid University, Abha, Kingdom of Saudi Arabia
| | - Eman R Esharkawy
- Department of Plant Ecology and Range Management, Ecology and Dry Lands Agriculture Division, Desert Research Center, Mathef El-Mataria, Egypt.,Department of Chemistry, Science Faculty for Girls, Northern Border University ARAR, North Region, Saudi Arabia
| | - Brahim Lakhrissi
- Laboratory of Organic Chemistry, Catalysis, and Environment, Department of Chemistry, Faculty of Sciences, Ibn Tofaïl University, Kenitra, Morocco
| | - Hsaine Zgou
- Polydisciplinary Faculty, Ibn Zohr University, Ouarzazate, Morocco
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Elsisi DM, Ragab A, Elhenawy AA, Farag AA, Ali AM, Ammar YA. Experimental and theoretical investigation for 6-Morpholinosulfonylquinoxalin-2(1H)-one and its haydrazone derivate: Synthesis, characterization, tautomerization and antimicrobial evaluation. J Mol Struct 2022. [DOI: 10.1016/j.molstruc.2021.131314] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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10
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Synthesis, Cytotoxic Activity, Crystal Structure, DFT Studies and Molecular Docking of 3-Amino-1-(2,5-dichlorophenyl)-8-methoxy-1H-benzo[f]chromene-2-carbonitrile. CRYSTALS 2021. [DOI: 10.3390/cryst11020184] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
The target compound 3-amino-1-(2,5-d ichlorophenyl)-8-methoxy-1H-benzo[f]-chromene-2-carbonitrile (4) was synthesized via a reaction of 6-methoxynaphthalen-2-ol (1), 2,5-dichlorobenzaldehyde (2), and malononitrile (3) in ethanolic piperidine solution under microwave irradiation. The newly synthesized β-enaminonitrile was characterized by FT-IR, 1H NMR, 13C NMR, mass spectroscopy, elemental analysis and X-ray diffraction data. Its cytotoxic activity was evaluated against three different human cancer cell lines MDA-MB-231, A549, and MIA PaCa-2 in comparison to the positive controls etoposide and camptothecin employing the XTT cell viability assay. The analysis of the Hirshfeld surface was utilized to visualize the reliability of the crystal package. The obtained results confirmed that the tested molecule revealed promising cytotoxic activities against the three cancer cell lines. Furthermore, theoretical calculations (DFT) were carried out with the Becke3-Lee-Yang-parr (B3LYP) level using 6-311++G(d,p) basis. The optimization geometry for molecular structures was in agreement with the X-ray structure data. The HOMO-LUMO energy gap of the studied system was discussed. The intermolecular-interactions were studied through analysis of the topological-electron-density(r) using the QTAIM and NCI methods. The novel compound exhibited favorable ADMET properties and its molecular modeling analysis showed strong interaction with DNA methyltransferase 1.
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11
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Kaddouri Y, Abrigach F, Ouahhoud S, Benabbes R, El Kodadi M, Alsalme A, Al-Zaqri N, Warad I, Touzani R. Synthesis, characterization, reaction mechanism prediction and biological study of mono, bis and tetrakis pyrazole derivatives against Fusarium oxysporum f. sp. Albedinis with conceptual DFT and ligand-protein docking studies. Bioorg Chem 2021; 110:104696. [PMID: 33652343 DOI: 10.1016/j.bioorg.2021.104696] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/02/2020] [Revised: 12/18/2020] [Accepted: 01/28/2021] [Indexed: 11/20/2022]
Abstract
Twelve heterocyclic compounds were prepared using the condensation of hydroxymethanol pyrazole derivatives with different primary aminesas example 2-aminothiazole and 1-aminobenzotriazole to have a diverse productin good yield up to 97%. Those ligands were tested against Fusarium oxysporum f. sp. Albedinis fungi (BAYOUD Disease) with IC50 = 25.6-33.2 µg/ml. After experiments, theoretical investigations were done as DFT study to know the ligands molecular reactivity and the-ligandprotein- docking study to know the possible binding between the prepared ligands with two biological targets: FGB1 (Fusarium oxysporum Guanine nucleotide-binding protein beta subunitprimary amino acid sequence) and Fophy (Fusarium oxysporum phytase domain enzyme). Of all the obtained results, the experimental ones were well correlated with the theoretical with the most common thing between those compounds is (Nδ--Nδ+) which is the antifungal pharmacophore as proposed pincers for Foa inhibition. From docking studies over FGB1 and Fophy, the ligand 9 has the best binding energy of -6.4872 kcal/mol in FGB1 active site and -5.5282 kcal/mol in Fophy active site, but better correlation with Fophy than FGB1 which is followed by PLIF graph to get that Arg116, Arg120 and Lys336 are the vital amino acids of fophy protein based the study over the chosen active site.
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Affiliation(s)
- Yassine Kaddouri
- Laboratory of Applied Chemistry and Environment (LCAE), Faculty of Sciences, University Mohammed Premier, Oujda, Morocco.
| | - Farid Abrigach
- Laboratory of Applied Chemistry and Environment (LCAE), Faculty of Sciences, University Mohammed Premier, Oujda, Morocco
| | - Sabir Ouahhoud
- Laboratory of Biochemistry (LB), Department of Biology, Faculty of Sciences, University Mohamed Premier, Oujda, Morocco
| | - Redouane Benabbes
- Laboratory of Biochemistry (LB), Department of Biology, Faculty of Sciences, University Mohamed Premier, Oujda, Morocco
| | - Mohamed El Kodadi
- Laboratory of Applied Chemistry and Environment (LCAE), Faculty of Sciences, University Mohammed Premier, Oujda, Morocco; Laboratoire d'Innovation en Sciences, Technologie et Education (LISTE), CRMEF Oriental, Oujda, Morocco
| | - Ali Alsalme
- Department of chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - Nabil Al-Zaqri
- Department of chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia; Department of Chemistry, College of Science, Ibb University, P. O. Box 70270, Ibb, Yemen
| | - Ismail Warad
- Department of Chemistry, Science College, An-Najah National University, PB 7, Nablus, Palestine
| | - Rachid Touzani
- Laboratory of Applied Chemistry and Environment (LCAE), Faculty of Sciences, University Mohammed Premier, Oujda, Morocco
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12
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Synthesis, biological activity and POM/DFT/docking analyses of annulated pyrano[2,3-d]pyrimidine derivatives: Identification of antibacterial and antitumor pharmacophore sites. Bioorg Chem 2020; 106:104480. [PMID: 33279245 DOI: 10.1016/j.bioorg.2020.104480] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/12/2020] [Revised: 09/27/2020] [Accepted: 11/15/2020] [Indexed: 12/17/2022]
Abstract
New annulated pyrano[2,3-d]pyrimidine derivatives were synthesized with hydroxyl, methoxy, bromine, nitrile and nitro substituents on its skeleton. The correlated electronic effect of substituents on the magnitude of antibacterial activity was noted. The electron donating substituents (namely; 4-OH, 4-OCH3, 4-Br) and electron withdrawing substituents (4-NO2) on phenyl ring in the pyrano[2,3-d]pyrimidine skeleton exerted different influence on its antimicrobial activity against some Gram-positive and Gram-negative bacteria such as Pseudomonas aureus, E. coli, Staphylococcus aureus, Klebsiella pneumonia and Bacillus cereus. All the pyrano[2,3-d]pyrimidines were characterized by spectroscopic analyses. Antibacterial screening revealed that the presence of heteroaryl, cyano and amino groups on pyrano[2,3-d]pyrimidine skeleton increases its penetrating power on the bacterial cell wall so that the product becomes more biologically active. So the the nature of electron withdrawing or electro-donnor Impact of substituents should be taken in consideration in drug design. Hydrolysis of -CRN to amide restored vital Intramolecular interaction like ortho-nitrophenyl and ONOδ-…NHδ+/amide link, offering a crucial template for antibacterial NH, HO-pharmacophore sites, which ultimately elevated innate antimicrobial profiles. POM combinatorial analysis of tangible electronic contributions due to armed annulated pyrano[2,3-d]pyrimidines concluded their broad antimicrobial activity and viable/prominent drug score index through perspective parameters particularly: inter atomic distance/linkers, steric, electronic, polar parameters, and with a different polarising effect of electron donating/withdrawing environments of substituents. Furthermore, an anti-Kinase pharmacophore site (OCNHCO) was evaluated in continuation of the POM investigations. All synthesized products verified fewer side effects than standard streptomycin, but facile implication in selective cancer media (viz. breast or leucemia still needs to be screened).
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Farghaly TA, Abbas IM, Hassan WMI, Lotfy MS, Al-Qurashi NT, Hadda TB. Structure Determination and Quantum Chemical Analysis of 1,3-Dipolar Cycloaddition of Nitrile Imines and New Dipolarophiles and POM Analyses of the Products as Potential Breast Cancer Inhibitors. RUSSIAN JOURNAL OF ORGANIC CHEMISTRY 2020. [DOI: 10.1134/s1070428020070210] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
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14
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Elsharkawy ER, Almalki F, Ben Hadda T, Rastija V, Lafridi H, Zgou H. DFT calculations and POM analyses of cytotoxicity of some flavonoids from aerial parts of Cupressus sempervirens: Docking and identification of pharmacophore sites. Bioorg Chem 2020; 100:103850. [PMID: 32460177 DOI: 10.1016/j.bioorg.2020.103850] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2020] [Revised: 04/08/2020] [Accepted: 04/10/2020] [Indexed: 11/30/2022]
Abstract
Two known polyphenols named apigenin 7-O-β-d-glucopyranoside (S1) and querctine-3-O-glucoside (S2), along with another two new compounds apigenin 4'-geranyl-8-glucopyranosyl-7-O-α-glucopyranoside (S3) and apigenin 4'-pernyl-8-glucopyranosyl -7-O-α-glucopyranoside (S4), were isolated from the leaves of Cupressus sempervirens. Structure elucidation of the isolated polyphenols was established on the basis of detailed spectroscopic analysis like 1D and 2D NMR analyses including 1H NMR, 13C NMR, COSY, DEPT, HMQC, UV, and Electron Spray Ionization Mass Spectroscopy (ESI-MS). Density Functional Theory (DFT) of computational, Petra/Osiris/Molinspiration (POM), and docking analyses methods were applied in the structural validation of new isolated compounds. The isolated compounds S1-S4 showed significant cytotoxicity against human hepatocellular liver carcinoma HepG2 cells, MCF-7, HC116 and A549.
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Affiliation(s)
- Eman R Elsharkawy
- Chemistry Department, Faculty of Science, Northern Borders University, Arar, Saudi Arabia; Ecophysiology Unit, Plant Ecology and Ranges Department, Desert Research Center, Cairo, Egypt.
| | - Faisal Almalki
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm AlQura University, Makkah 21955, Saudi Arabia.
| | - Taibi Ben Hadda
- Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm AlQura University, Makkah 21955, Saudi Arabia; Laboratory of Applied Chemistry & Environment, Faculty of Sciences, Mohammed Premier University, MB 524, 60000 Oujda, Morocco.
| | - Vesna Rastija
- Department of Agroecology and Environmental Protection, Faculty of Agrobiotehnical Sciences Osijek, Josip Juraj Strossmayer University of Osijek, Vladimira Preloga 1, Osijek, Croatia.
| | - Hind Lafridi
- Material Sciences, Processes, Environment & Modeling, Polydisciplinary Faculty, Ibn Zohr University, Ouarzazate, Morocco; Ibn Zohr University, Faculty of Sciences, B.P. 8106, 80090 Agadir, Morocco.
| | - Hsaine Zgou
- Ibn Zohr University, Faculty of Sciences, B.P. 8106, 80090 Agadir, Morocco.
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15
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Jamalis J, Yusof FSM, Chander S, Wahab RA, Bhagwat DP, Sankaranarayanan M, Almalki F, Ben Hadda T. Psoralen Derivatives: Recent Advances of Synthetic Strategy and Pharmacological Properties. Antiinflamm Antiallergy Agents Med Chem 2020; 19:222-239. [PMID: 31241020 PMCID: PMC7499361 DOI: 10.2174/1871523018666190625170802] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2019] [Revised: 04/14/2019] [Accepted: 05/02/2019] [Indexed: 11/22/2022]
Abstract
Psoralen or furocoumarin is a linear three ring heterocyclic compound. Psoralens are planar, tricyclic compounds, consisting of a furan ring fused to a coumarin moiety. Psoralen has been known for a wide spectrum of biological activities, spanning from cytotoxic, photosensitizing, insecticidal, antibacterial to antifungal effect. Thus, several structural changes were introduced to explore the role of specific positions with respect to the biological activity. Convenient approaches utilized for the synthesis of psoralen skeleton can be categorized into two parts: (i) the preparation of the tricyclic ring system from resorcinol, (ii) the exocyclic modification of the intact ring system. Furthermore, although psoralens have been used in diverse ways, we mainly focus in this work on their clinical utility for the treatment of psioraisis, vitiligo and skin-related disorder.
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Affiliation(s)
- Joazaizulfazli Jamalis
- Address correspondence to these authors at the Department of Chemistry, Faculty of Science, Universiti Teknologi Malaysia, 81310 Johor Bahru, Johor, Malaysia and Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm Al-Qura University, Makkah Almukkarramah, Saudi Arabia; Tel: +0133176356; E-mails: (JJ); (TBH)
| | | | | | | | | | | | | | - Taibi Ben Hadda
- Address correspondence to these authors at the Department of Chemistry, Faculty of Science, Universiti Teknologi Malaysia, 81310 Johor Bahru, Johor, Malaysia and Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Umm Al-Qura University, Makkah Almukkarramah, Saudi Arabia; Tel: +0133176356; E-mails: (JJ); (TBH)
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16
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Rbaa M, Oubihi A, Anouar EH, Ouhssine M, Almalki F, Hadda TB, Zarrouk A, Lakhrissi B. Synthesis of new heterocyclic systems oxazino derivatives of 8-Hydroxyquinoline: Drug design and POM analyses of substituent effects on their potential antibacterial properties. ACTA ACUST UNITED AC 2019. [DOI: 10.1016/j.cdc.2019.100306] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
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17
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Synthesis, DFT and POM analyses of cytotoxicity activity of α-amidophosphonates derivatives: Identification of potential antiviral O,O-pharmacophore site. J Mol Struct 2019. [DOI: 10.1016/j.molstruc.2019.07.053] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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18
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Amirkhanov V, Rauf A, Hadda TB, Ovchynnikov V, Trush V, Saleem M, Raza M, Rehman T, Zgou H, Shaheen U, Farghaly TA. Pharmacophores Modeling in Terms of Prediction of Theoretical Physicochemical Properties and Verification by EXPERIMENTAL correlations of Carbacylamidophosphates (CAPh) and Sulfanylamidophosphates (SAPh) Tested as New Carbonic Anhydrase Inhibitors. Mini Rev Med Chem 2019; 19:1015-1027. [DOI: 10.2174/1389557519666190222172757] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/27/2018] [Revised: 02/11/2019] [Accepted: 02/12/2019] [Indexed: 11/22/2022]
Abstract
Background:
The function of Carbonic anhydrase is to facilitate the physiological process
i.e. interconversion of CO2 to HCO3
- by hydration. Carbonic anhydrase enzyme plays a vital role in different
physiological processes to regulate pH as well as regulate the inner environment of CO2 and secretion
of electrolytes.
Methods:
Six representatives of amidophosphate derivatives (L1-L6) were synthesized and evaluated
for their biological activities against carbonic anhydrase enzyme.
Results:
Out of six derivatives, L1 (IC50 = 12.5 ± 1.35 µM), and L2 (IC50 = 3.12 ± 0.45 µM) showed
potent activity against BCA-II. While (L3, L4 and L5) showed weak inhibitory activity with IC50 values
of 24.5 ± 2.25, 55.5± 1.60, and 75.5 ± 1.25 µM, respectively and were found to be weak inhibitors of
carbonic anhydrase as compared to acetazolamide (IC50 =0.12± 0.03µM), used as standard inhibitor.
A computational Petra/Osiris/Molinspiration/DFT (POM/DFT) based model has been expanded for the
determination of physicochemical parameters governing the bioactivity amidophosphate derivatives
(L1-L6) containing (O1 --- O2) pharmacophore site. The six compounds (L1-L6) analyzed here were
previously experimentally and now virtually screened for their anti-carbonic anhydrase activity.
:
A computational Petra/Osiris/Molinspiration/DFT (POM/DFT) based model has been expanded for the
determination of physicochemical parameters governing the bioactivity amidophosphate derivatives
(L1-L6) containing (O1 --- O2) pharmacophore site. The six compounds (L1-L6) analyzed here were
previously experimentally and now virtually screened for their anti-carbonic anhydrase activity.
Conclusion:
The highest anti-carbonic anhydrase activity was obtained for compound L2, which exhibited
excellent bioactivity (% of inhibition = 95%), comparable to acetazolamide (% of inhibition =
89%). The compound L3 represents increased activity as compared to its analogues (L4-L6). The increase
of bioactivity from L3 to L4-L6 could be attributed to the presence of a minimum of steric effect
of substituents of P=O moiety which plays a decisive template part in the organization of anti-carbonic
anhydrase (O1---O2) phramacophore site. Moreover, it is inexpensive, has little side effects and possible
inclusions in selective anti-carbonic anhydrase agents design.
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Affiliation(s)
- Vladimir Amirkhanov
- Department of Chemistry, aKyiv National Taras Shevchenko University, Volodymyrska str. 64, 01601 Kyiv, Ukraine
| | - Abdur Rauf
- Department of Chemistry, University of Swabi, Anbar-23561, Khyber Pakhtunkhwa, Pakistan
| | - Taibi Ben Hadda
- LCM Laboratory, University of Mohammed Premier, Faculty of Sciences, Oujda 60000, Morocco
| | - Vladimir Ovchynnikov
- Department of Chemistry, aKyiv National Taras Shevchenko University, Volodymyrska str. 64, 01601 Kyiv, Ukraine
| | - Viktor Trush
- Department of Chemistry, aKyiv National Taras Shevchenko University, Volodymyrska str. 64, 01601 Kyiv, Ukraine
| | - Muhammad Saleem
- Department of Chemistry, University of Education, Lahore, Campus Dera Ghazi Khan, 32200, Punjab, Pakistan
| | - Muslam Raza
- State Key Laboratory of Chemical Resource Engineering, Beijing University of Chemical Technology, East Road of North Third Ring, Chao Yang District, Beijing, China
| | - Tayyeba Rehman
- Department of Pharmacy, Islamia University of Bahawalpur Punjab, Pakistan
| | - Hsaine Zgou
- Polydisciplinary Faculty, Ibn Zohr University, Ouarzazate, Morocco
| | - Usama Shaheen
- Department of Pharmacognosy (PHGN), Umm Al-Qura University, Mecca, Saudi Arabia
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Hadda TB, Rauf A, Zgou H, Senol FS, Orhan IE, Mabkhot YN, Althagafi II, Farghaly TA, Alterary S. Drug Design of Inhibitors of Alzheimer's Disease (AD): POM and DFT Analyses of Cholinesterase Inhibitory Activity of β-amino di-Carbonyl Derivatives. Mini Rev Med Chem 2019; 19:688-705. [PMID: 30387392 DOI: 10.2174/1389557518666181102102816] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2017] [Revised: 01/20/2018] [Accepted: 03/17/2018] [Indexed: 01/15/2023]
Abstract
BACKGROUND Since deficit of acetylcholine has been evidenced in the Alzheimer's disease (AD) patients, cholinesterase inhibitors are currently the most specified drug category for the remediation of AD. METHOD In the present study, 16 compounds (1-16) with dicarbonyl skeletons have been synthesized and tested for their inhibitory potential in vitro against AChE and BChE using ELISA microtiter plate assays at 100 μg/mL. Since metal accumulation is related to AD, the compounds were also tested for their metal-chelation capacity. RESULTS AND CONCLUSION All the investigated dicarbonyl compounds exerted none or lower than 30% inhibition against both cholinesterases, whereas compounds 2, 8 and 11 showed 37, 42, 41% of inhibition towards BChE, being the most active. The highest metal-chelation capacity was observed with compound 8 (53.58 ± 2.06%). POM and DFT analyses are in good harmonization with experimental data.
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Affiliation(s)
- Taibi Ben Hadda
- LCM, Department of Chemestry, Faculty of Sciences, University Mohammed Premier, Oujda 60000, Morocco
| | - Abdur Rauf
- Department of Geology, University of Swabi, Anbar 23561, Khyber Pakhtunkhwa, Pakistan
| | - Hsaine Zgou
- Ibn Zohr University, Polydisciplinary Faculty, Ouarzazate 45000, Morocco
| | - Fatma Sezer Senol
- Department of Pharmacognosy, Pharmacy Faculty, Gazi University, Ankara 06330, Turkey
| | - Ilkay Erdogan Orhan
- Department of Pharmacognosy, Pharmacy Faculty, Gazi University, Ankara 06330, Turkey
| | - Yahia Nasser Mabkhot
- Department of Pharmaceutical Chemistry, College of Pharmacy, King Khalid University, Abha, Saudi Arabia
| | | | - Thoraya A Farghaly
- Department of Chemistry, Faculty of Science, University of Cairo, Giza, Egypt
| | - Seham Alterary
- Department of Chemistry, College of Science, King Saud University, P.O. Box 2455, Riyadh-11451, Saudi Arabia
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20
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Hakkou Z, Maciuk A, Leblais V, Bouanani NE, Mekhfi H, Bnouham M, Aziz M, Ziyyat A, Rauf A, Hadda TB, Shaheen U, Patel S, Fischmeister R, Legssyer A. Antihypertensive and vasodilator effects of methanolic extract of Inula viscosa: Biological evaluation and POM analysis of cynarin, chlorogenic acid as potential hypertensive. Biomed Pharmacother 2017. [PMID: 28623784 DOI: 10.1016/j.biopha.2017.06.015] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022] Open
Abstract
BACKGROUND Inula viscosa L. (Asteraceae) is a medicinal plant widely used as a folk medicine in oriental Morocco, to treat hypertension. The antihypertensive effect of the methanolic extract obtained from I. viscosa leaves was evaluated in hypertensive L-NAME rats. Systolic blood pressure (SBP) was measured using a non-invasive indirect tail-cuff plethysmographic method. Four groups of rats were used: a control group; a hypertensive group treated with L-NAME (32mg/kg/day); a positive control group treated with L-NAME plus enalapril (15mg/kg/day) as a reference antihypertensive agent; and a group treated with L-NAME plus MeOH-extract (40mg/kg/day). METHODS Treatment with L-NAME alone caused a progressive increase in SBP. After 4 weeks, the value of SBP reached 160±2mmHg which shows the installation of hypertension. Enalapril prevented the increase in SBP, which remained normal at 123±1mmHg after 4 weeks of treatment. The administration of MeOH-extract along with L-NAME prevented the increase in SBP as well, which remained constant at 115±1mmHg after 4 weeks of treatment. In ex-vivo models, MeOH-extract produced a relaxation of pre-contracted ring aorta (54 ± 2% of relaxation at 3g/L). But, when the rings were denuded, MeOH-extract failed to relax pre-contracted rings of aorta. Phytochemical study of I. viscosa MeOH-extract revealed the presence of phenolic compounds, such as cynarin and chlorogenic acid. RESULTS The present results suggest that I. viscosa MeOH-extract has an antihypertensive, predominantly mediated by an endothelium-dependent vasodilatory effect. Cynarin and chlorogenic acid, which have a strong vasorelaxant effect may be involved in the antihypertensive effect of the plant extract. The bioinformatic POM analysis confirms the therapeutic potential of cynarin and chlorogenic acids as inhibitors of various biotargets. Based on the results, the coordination of these phytochemicals with calcium and transition metals should be studied, for better scope at antihypertensive drug development.
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Affiliation(s)
- Zineb Hakkou
- Laboratoire de Physiologie et Ethnopharmacologie URAC40, Faculté des Sciences, Université Mohammed Premier, Oujda, Morocco
| | - Alexandre Maciuk
- Laboratoire de Pharmacognosie UPRES-A 8076 CNRS, BIOCIS, Faculté de Pharmacie Université Paris Sud XI Chatenay Malabry, France
| | - Veronique Leblais
- Laboratoire de Signalisation et Physiopathologie Cardiaque INSERM UMR-S 769, Faculté de Pharmacie Université Paris Sud XI Chatenay Malabry, France
| | - Nour Elhouda Bouanani
- Laboratoire de Physiologie et Ethnopharmacologie URAC40, Faculté des Sciences, Université Mohammed Premier, Oujda, Morocco
| | - Hassane Mekhfi
- Laboratoire de Physiologie et Ethnopharmacologie URAC40, Faculté des Sciences, Université Mohammed Premier, Oujda, Morocco
| | - Mohammed Bnouham
- Laboratoire de Physiologie et Ethnopharmacologie URAC40, Faculté des Sciences, Université Mohammed Premier, Oujda, Morocco
| | - Mohammed Aziz
- Laboratoire de Physiologie et Ethnopharmacologie URAC40, Faculté des Sciences, Université Mohammed Premier, Oujda, Morocco
| | - Abderrahime Ziyyat
- Laboratoire de Physiologie et Ethnopharmacologie URAC40, Faculté des Sciences, Université Mohammed Premier, Oujda, Morocco
| | - Abdur Rauf
- Department of Chemistry, University of Swabi, Anbar 23561, Khyber Pakhtunkhwa, Pakistan.
| | - Taibi Ben Hadda
- Laboratoire de Chimie des Matériaux, Faculté des Sciences , Département de Chimie, Université Mohammed Premier , Oujda 60000, Morocco
| | - Usama Shaheen
- Department of Pharmacognosy, Faculty of Pharmacy, Umm Al-Qura University, Makkah-21955, Saudi Arabia
| | - Seema Patel
- Bioinformatics and Medical Informatics Research Center, San Diego State University, San Diego, 92182, USA
| | - Rodolphe Fischmeister
- Laboratoire de Signalisation et Physiopathologie Cardiaque INSERM UMR-S 769, Faculté de Pharmacie Université Paris Sud XI Chatenay Malabry, France
| | - Abdelkhaleq Legssyer
- Laboratoire de Physiologie et Ethnopharmacologie URAC40, Faculté des Sciences, Université Mohammed Premier, Oujda, Morocco.
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