<?xml version="1.0" encoding="UTF-8"?>
<!DOCTYPE root>
<article xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:ali="http://www.niso.org/schemas/ali/1.0/" article-type="research-article" dtd-version="1.2" xml:lang="en"><front><journal-meta><journal-id journal-id-type="publisher-id">Current Computer-Aided Drug Design</journal-id><journal-title-group><journal-title xml:lang="en">Current Computer-Aided Drug Design</journal-title><trans-title-group xml:lang="ru"><trans-title>Current Computer-Aided Drug Design</trans-title></trans-title-group></journal-title-group><issn publication-format="print">1573-4099</issn><issn publication-format="electronic">1875-6697</issn><publisher><publisher-name xml:lang="en">Bentham Science</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="publisher-id">644454</article-id><article-id pub-id-type="doi">10.2174/1573409920666230818092445</article-id><article-categories><subj-group subj-group-type="toc-heading"><subject>Chemistry</subject></subj-group><subj-group subj-group-type="article-type"><subject>Research Article</subject></subj-group></article-categories><title-group><article-title xml:lang="en">The Potential Roles of Ficus carica Extract in the Management of COVID-19 Viral Infections: A Computer-aided Drug Design Study</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Hamed</surname><given-names>Mahmoud</given-names></name><email>info@benthamscience.net</email><xref ref-type="aff" rid="aff1"/></contrib><contrib contrib-type="author"><name><surname>Khalifa</surname><given-names>Maha</given-names></name><email>info@benthamscience.net</email><xref ref-type="aff" rid="aff2"/></contrib><contrib contrib-type="author"><name><surname>El Hassab</surname><given-names>Mahmoud</given-names></name><email>info@benthamscience.net</email><xref ref-type="aff" rid="aff3"/></contrib><contrib contrib-type="author"><name><surname>Abourehab</surname><given-names>Mohammed</given-names></name><email>info@benthamscience.net</email><xref ref-type="aff" rid="aff4"/></contrib><contrib contrib-type="author"><name><surname>Al Kamaly</surname><given-names>Omkulthom</given-names></name><email>info@benthamscience.net</email><xref ref-type="aff" rid="aff5"/></contrib><contrib contrib-type="author"><name><surname>Alanazi</surname><given-names>Ashwag</given-names></name><email>info@benthamscience.net</email><xref ref-type="aff" rid="aff6"/></contrib><contrib contrib-type="author"><name><surname>Eldehna</surname><given-names>Wagdy</given-names></name><email>info@benthamscience.net</email><xref ref-type="aff" rid="aff7"/></contrib><contrib contrib-type="author"><name><surname>Mansour</surname><given-names>Fotouh</given-names></name><email>info@benthamscience.net</email><xref ref-type="aff" rid="aff8"/></contrib></contrib-group><aff id="aff1"><institution>Pharmaceutical Services Center, Faculty of Pharmacy, Tanta University</institution></aff><aff id="aff2"><institution>Department of Pharmaceutics, Tanta Universal Teaching Hospital, Tanta University</institution></aff><aff id="aff3"><institution>Department of Medicinal Chemistry, Faculty of Pharmacy, King Salman International University (KSIU)</institution></aff><aff id="aff4"><institution>Department of Pharmaceutics, Faculty of Pharmacy, Umm al-Qura University</institution></aff><aff id="aff5"><institution>Department of Pharmaceutical Sciences, College of Pharmacy,, Princess Nourah bint Abdulrahman University</institution></aff><aff id="aff6"><institution>Department of Pharmaceutical Sciences, College of Pharmacy, Princess Nourah bint Abdulrahman University</institution></aff><aff id="aff7"><institution>Department of Pharmaceutical Chemistry, Faculty of Pharmacy, Kafrelsheikh University</institution></aff><aff id="aff8"><institution>Department of Pharmaceutical Analytical Chemistry, Faculty of Pharmacy, Tanta University</institution></aff><pub-date date-type="pub" iso-8601-date="2024-06-01" publication-format="electronic"><day>01</day><month>06</month><year>2024</year></pub-date><volume>20</volume><issue>6</issue><issue-title xml:lang="ru"/><fpage>974</fpage><lpage>986</lpage><history><date date-type="received" iso-8601-date="2025-01-07"><day>07</day><month>01</month><year>2025</year></date></history><permissions><copyright-statement xml:lang="en">Copyright ©; 2024, Bentham Science Publishers</copyright-statement><copyright-year>2024</copyright-year><copyright-holder xml:lang="en">Bentham Science Publishers</copyright-holder><ali:free_to_read xmlns:ali="http://www.niso.org/schemas/ali/1.0/"/></permissions><self-uri xlink:href="https://rjeid.com/1573-4099/article/view/644454">https://rjeid.com/1573-4099/article/view/644454</self-uri><abstract xml:lang="en"><p id="idm46041443755360">Introduction:The conventional processes of drug discovery are too expensive, timeconsuming and the success rate is limited. Searching for alternatives that have evident safety and potential efficacy could save money, time and improve the current therapeutic regimen outcomes.</p><p id="idm46041443759360">Method:Clinical phytotherapy implies the use of extracts of natural origin for prophylaxis, treatment, or management of human disorders. In this work, the potential role of common Fig (Ficus carica) in the management of COVID-19 infections has been explored. The antiviral effects of Cyanidin 3-rhamnoglucoside which is abundant in common Figs have been illustrated on COVID-19 targets. The immunomodulatory effect and the ability to ameliorate the cytokine storm associated with coronavirus infections have also been highlighted. This work involves various computational studies to investigate the potential roles of common figs in the management of COVID-19 viral infections.</p><p id="idm46041443763328">Results:Two molecular docking studies of all active ingredients in common Figs were conducted starting with MOE to provide initial insights, followed by Autodock Vina for further confirmation of the results of the top five compounds with the best docking score.</p><p id="idm46041443768384">Conclusion:Finally, Molecular dynamic simulation alongside MMPBSA calculations were conducted using GROMACS to endorse and validate the entire work.</p></abstract><kwd-group xml:lang="en"><kwd>Coronavirus pandemic</kwd><kwd>COVID-19</kwd><kwd>Ficus carica</kwd><kwd>common figs</kwd><kwd>molecular modelling</kwd><kwd>molecular docking.</kwd></kwd-group></article-meta></front><body></body><back><ref-list><ref id="B1"><label>1.</label><mixed-citation>Hughes, J.P.; Rees, S.; Kalindjian, S.B.; Philpott, K.L. Principles of early drug discovery. Br. J. Pharmacol., 2011, 162(6), 1239-1249. doi: 10.1111/j.1476-5381.2010.01127.x PMID: 21091654</mixed-citation></ref><ref id="B2"><label>2.</label><mixed-citation>Colalto, C. What phytotherapy needs: Evidence-based guidelines for better clinical practice. Phytother. Res., 2018, 32(3), 413-425. doi: 10.1002/ptr.5977 PMID: 29193357</mixed-citation></ref><ref id="B3"><label>3.</label><mixed-citation>Falzon, C.C.; Balabanova, A. Phytotherapy. Prim. Care, 2017, 44(2), 217-227. doi: 10.1016/j.pop.2017.02.001 PMID: 28501226</mixed-citation></ref><ref id="B4"><label>4.</label><mixed-citation>Barolo, M.I.; Ruiz Mostacero, N.; López, S.N. Ficus carica L. (Moraceae): An ancient source of food and health. Food Chem., 2014, 164, 119-127. doi: 10.1016/j.foodchem.2014.04.112 PMID: 24996314</mixed-citation></ref><ref id="B5"><label>5.</label><mixed-citation>Badgujar, S.B.; Patel, V.V.; Bandivdekar, A.H.; Mahajan, R.T. Traditional uses, phytochemistry and pharmacology of Ficus carica: A review. Pharm. Biol., 2014, 52(11), 1487-1503. doi: 10.3109/13880209.2014.892515 PMID: 25017517</mixed-citation></ref><ref id="B6"><label>6.</label><mixed-citation>Yasmeen, N.; Usha, K.G.; Sameer, A.S. Genotoxic and antimutagenic activity of ficus carica extracts. In: Fig (Ficus carica): Production, Processing, and Properties; Ramadan, M.F., Ed.; Springer International Publishing: Cham, 2023; pp. 579-596. doi: 10.1007/978-3-031-16493-4_26</mixed-citation></ref><ref id="B7"><label>7.</label><mixed-citation>Chauhan, A.; Tanwar, B. Intelli. influence of processing on physicochemical, nutritional and phytochemical composition of ficus carica (Fig) fruit. Res. J. Pharm. Biol. Chem. Sci., 2015, 6(6), 1474-1489.</mixed-citation></ref><ref id="B8"><label>8.</label><mixed-citation>Barolo, M.I.; Castelli, M.V.; López, S.N. Antimicrobial properties and biotransforming ability of fungal endophytes from Ficus carica L. (Moraceae). Mycology., 2023, 14(2), 108-132. doi: 10.1080/21501203.2023.2175500 PMID: 37152850</mixed-citation></ref><ref id="B9"><label>9.</label><mixed-citation>Hajibeygi, R.; Mirghazanfari, S.M.; Pahlavani, N.; Jalil, A.T.; Alshahrani, S.H.; Rizaev, J.A.; Hadi, S.; Hadi, V.; Yekta, N.H. Effect of a diet based on Iranian traditional medicine on inflammatory markers and clinical outcomes in COVID-19 patients: A double-blind, randomized, controlled trial. Eur. J. Integr. Med., 2022, 55, 102179. doi: 10.1016/j.eujim.2022.102179 PMID: 36035633</mixed-citation></ref><ref id="B10"><label>10.</label><mixed-citation>El Hassab, M.A.; Hemeda, L.R.; Elsayed, Z.M.; Al-Rashood, S.T.; Abdel-Hamid Amin, M.K.; Abdel-Aziz, H.A.; Eldehna, W.M. Computational prediction of the potential target of SARS‐CoV‐2 inhibitor plitidepsin via molecular docking, dynamic simulations and MM‐PBSA calculations. Chem. Biodivers., 2022, 19(2), e202100719. doi: 10.1002/cbdv.202100719 PMID: 34813168</mixed-citation></ref><ref id="B11"><label>11.</label><mixed-citation>El Hassab, M.A.; Eldehna, W.M.; Al-Rashood, S.T.; Alharbi, A.; Eskandrani, R.O.; Alkahtani, H.M.; Elkaeed, E.B.; Abou-Seri, S.M. Multi-stage structure-based virtual screening approach towards identification of potential SARS-CoV-2 NSP13 helicase inhibitors. J. Enzyme Inhib. Med. Chem., 2022, 37(1), 563-572. doi: 10.1080/14756366.2021.2022659 PMID: 35012384</mixed-citation></ref><ref id="B12"><label>12.</label><mixed-citation>Basu, S.; Ramaiah, S.; Anbarasu, A. In-silico strategies to combat COVID-19: A comprehensive review. Biotechnol. Genet. Eng. Rev., 2021, 37(1), 64-81. doi: 10.1080/02648725.2021.1966920 PMID: 34470564</mixed-citation></ref><ref id="B13"><label>13.</label><mixed-citation>Ali, M.; Nur, A.; Khatun, M.; Dash, R.; Rahman, M.; Karim, M. Identification of potential SARS-CoV-2 main protease inhibitors from Ficus Carica Latex: An in-silico approach. J. Adv. Biotechnol. Exp. Ther., 2020, 3(4), 57. doi: 10.5455/jabet.2020.d157</mixed-citation></ref><ref id="B14"><label>14.</label><mixed-citation>Upreti, S.; Prusty, J.S.; Pandey, S.C.; Kumar, A.; Samant, M. Identification of novel inhibitors of angiotensin-converting enzyme 2 (ACE-2) receptor from Urtica dioica to combat coronavirus disease 2019 (COVID-19). Mol. Divers., 2021, 25(3), 1795-1809. doi: 10.1007/s11030-020-10159-2 PMID: 33398633</mixed-citation></ref><ref id="B15"><label>15.</label><mixed-citation>Lingwan, M.; Shagun, S.; Pahwa, F.; Kumar, A.; Verma, D.K.; Pant, Y.; Kamatam, L.V.K.; Kumari, B.; Nanda, R.K.; Sunil, S.; Masakapalli, S.K. Phytochemical rich Himalayan Rhododendron arboreum petals inhibit SARS-CoV-2 infection in vitro. J. Biomol. Struct. Dyn., 2023, 41(4), 1403-1413. doi: 10.1080/07391102.2021.2021287 PMID: 34961411</mixed-citation></ref><ref id="B16"><label>16.</label><mixed-citation>Trott, O.; Olson, A.J. AutoDock Vina: Improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading. J. Comput. Chem., 2009, 31(2), 455-461.</mixed-citation></ref><ref id="B17"><label>17.</label><mixed-citation>Abraham, M.J.; Murtola, T.; Schulz, R.; Páll, S.; Smith, J.C.; Hess, B.; Lindahl, E. GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers. SoftwareX., 2015, 1-2, 19-25. doi: 10.1016/j.softx.2015.06.001</mixed-citation></ref><ref id="B18"><label>18.</label><mixed-citation>Schüttelkopf, A.W.; van Aalten, D.M.F. PRODRG: A tool for high-throughput crystallography of proteinligand complexes. Acta Crystallogr. D Biol. Crystallogr., 2004, 60(8), 1355-1363. doi: 10.1107/S0907444904011679 PMID: 15272157</mixed-citation></ref><ref id="B19"><label>19.</label><mixed-citation>Schuler, L.D.; Daura, X.; van Gunsteren, W.F. An improved GROMOS96 force field for aliphatic hydrocarbons in the condensed phase. J. Comput. Chem., 2001, 22(11), 1205-1218. doi: 10.1002/jcc.1078</mixed-citation></ref><ref id="B20"><label>20.</label><mixed-citation>Lazreg Aref, H.; Gaaliche, B.; Fekih, A.; Mars, M.; Aouni, M.; Pierre Chaumon, J.; Said, K. In vitro cytotoxic and antiviral activities of Ficus carica latex extracts. Nat. Prod. Res., 2011, 25(3), 310-319. doi: 10.1080/14786419.2010.528758 PMID: 21294043</mixed-citation></ref><ref id="B21"><label>21.</label><mixed-citation>Kumari, R.; Kumar, R.; Lynn, A. g_mmpbsa--a GROMACS tool for high-throughput MM-PBSA calculations. J. Chem. Inf. Model., 2014, 54(7), 1951-1962. doi: 10.1021/ci500020m PMID: 24850022</mixed-citation></ref><ref id="B22"><label>22.</label><mixed-citation>Fazel, M.; Wheeler, J.; Danesh, J. Prevalence of serious mental disorder in 7000 refugees resettled in western countries: A systematic review. Lancet., 2005, 365(9467), 1309-1314. doi: 10.1016/S0140-6736(05)61027-6 PMID: 15823380</mixed-citation></ref><ref id="B23"><label>23.</label><mixed-citation>Liu, J.; Liao, X.; Qian, S.; Yuan, J.; Wang, F.; Liu, Y.; Wang, Z.; Wang, F.S.; Liu, L.; Zhang, Z. Community transmission of severe acute respiratory syndrome coronavirus 2, Shenzhen, China, 2020. Emerg. Infect. Dis., 2020, 26(6), 1320-1323. doi: 10.3201/eid2606.200239 PMID: 32125269</mixed-citation></ref><ref id="B24"><label>24.</label><mixed-citation>Wu, G.; Yang, P.; Xie, Y.; Woodruff, H.C.; Rao, X.; Guiot, J.; Frix, A.N.; Louis, R.; Moutschen, M.; Li, J.; Li, J.; Yan, C.; Du, D.; Zhao, S.; Ding, Y.; Liu, B.; Sun, W.; Albarello, F.; DAbramo, A.; Schininà, V.; Nicastri, E.; Occhipinti, M.; Barisione, G.; Barisione, E.; Halilaj, I.; Lovinfosse, P.; Wang, X.; Wu, J.; Lambin, P. Development of a clinical decision support system for severity risk prediction and triage of COVID-19 patients at hospital admission: An international multicentre study. Eur. Respir. J., 2020, 56(2), 2001104. doi: 10.1183/13993003.01104-2020 PMID: 32616597</mixed-citation></ref><ref id="B25"><label>25.</label><mixed-citation>Cao, W.; Li, T. COVID-19: Towards understanding of pathogenesis. Cell Res., 2020, 30(5), 367-369. doi: 10.1038/s41422-020-0327-4 PMID: 32346073</mixed-citation></ref><ref id="B26"><label>26.</label><mixed-citation>Russell, C.D.; Millar, J.E.; Baillie, J.K. Clinical evidence does not support corticosteroid treatment for 2019-nCoV lung injury. Lancet., 2020, 395(10223), 473-475. doi: 10.1016/S0140-6736(20)30317-2 PMID: 32043983</mixed-citation></ref><ref id="B27"><label>27.</label><mixed-citation>King, R.G.; Silva-Sanchez, A.; Peel, J.N.; Botta, D.; Dickson, A.M.; Pinto, A.K.; Meza-Perez, S.; Allie, S.R.; Schultz, M.D.; Liu, M.; Bradley, J.E.; Qiu, S.; Yang, G.; Zhou, F.; Zumaquero, E.; Simpler, T.S.; Mousseau, B.; Killian, J.T., Jr; Dean, B.; Shang, Q.; Tipper, J.L.; Risley, C.A.; Harrod, K.S.; Feng, T.; Lee, Y.; Shiberu, B.; Krishnan, V.; Peguillet, I.; Zhang, J.; Green, T.J.; Randall, T.D.; Suschak, J.J.; Georges, B.; Brien, J.D.; Lund, F.E.; Roberts, M.S. Single-dose intranasal administration of AdCOVID elicits systemic and mucosal immunity against SARS-CoV-2 and fully protects mice from lethal challenge. Vaccines., 2021, 9(8), 881. doi: 10.3390/vaccines9080881 PMID: 34452006</mixed-citation></ref><ref id="B28"><label>28.</label><mixed-citation>Singh, D.; Singh, B.; Goel, R.K. Traditional uses, phytochemistry and pharmacology of Ficus religiosa: A review. J. Ethnopharmacol., 2011, 134(3), 565-583. doi: 10.1016/j.jep.2011.01.046 PMID: 21296646</mixed-citation></ref><ref id="B29"><label>29.</label><mixed-citation>Sethi, A.; Joshi, K.; Sasikala, K.; Alvala, M. Molecular Docking in Modern Drug Discovery: Principles and Recent Applications. In: Drug Discovery and Development - New Advances; IntechOpen, 2020.</mixed-citation></ref><ref id="B30"><label>30.</label><mixed-citation>Prieto-Martínez, F.D.; Arciniega, M.; Medina-Franco, J. Molecular docking: Current advances and challenges. TIP Rev Esp Cienc Quim Biol, 2018, 21(S1), 65-87.</mixed-citation></ref><ref id="B31"><label>31.</label><mixed-citation>Dalal, V.; Kumari, R. Screening and identification of natural product‐like compounds as potential antibacterial agents targeting FemC of Staphylococcus aureus: An in Silico Approach. ChemistrySelect, 2022, 7(42), e202201728. doi: 10.1002/slct.202201728</mixed-citation></ref><ref id="B32"><label>32.</label><mixed-citation>Kumari, R.; Rathi, R.; Pathak, S.R.; Dalal, V. Structural-based virtual screening and identification of novel potent antimicrobial compounds against YsxC of Staphylococcus aureus. J. Mol. Struct., 2022, 1255, 132476. doi: 10.1016/j.molstruc.2022.132476</mixed-citation></ref><ref id="B33"><label>33.</label><mixed-citation>Kumari, R.; Kumar, V.; Dhankhar, P.; Dalal, V. Promising antivirals for PLpro of SARS-CoV-2 using virTUAL screening; Molecular Docking, Dynamics, and MMPBSA, 2022. doi: 10.1080/07391102.2022.2071340</mixed-citation></ref><ref id="B34"><label>34.</label><mixed-citation>Das, S.; Sarmah, S.; Lyndem, S.; Singha Roy, A. An investigation into the identification of potential inhibitors of SARS-CoV-2 main protease using molecular docking study. J. Biomol. Struct. Dyn., 2020, 39(9), 3347-3357. doi: 10.1080/07391102.2020.1763201 PMID: 32362245</mixed-citation></ref><ref id="B35"><label>35.</label><mixed-citation>Gentile, D.; Patamia, V.; Scala, A.; Sciortino, M.T.; Piperno, A.; Rescifina, A. Putative inhibitors of SARS-CoV-2 main protease from a library of marine natural products: A virtual screening and molecular modeling study. Mar. Drugs, 2020, 18(4), 225. doi: 10.3390/md18040225 PMID: 32340389</mixed-citation></ref><ref id="B36"><label>36.</label><mixed-citation>Bacha, U.; Barrila, J.; Velazquez-Campoy, A.; Leavitt, S.A.; Freire, E. Identification of novel inhibitors of the SARS coronavirus main protease 3CLpro. Biochemistry., 2004, 43(17), 4906-4912. doi: 10.1021/bi0361766 PMID: 15109248</mixed-citation></ref><ref id="B37"><label>37.</label><mixed-citation>Pillaiyar, T.; Manickam, M.; Namasivayam, V.; Hayashi, Y.; Jung, S.H. An overview of severe acute respiratory syndromecoronavirus (SARS-CoV) 3CL protease inhibitors: Peptidomimetics and small molecule chemotherapy. J. Med. Chem., 2016, 59(14), 6595-6628. doi: 10.1021/acs.jmedchem.5b01461 PMID: 26878082</mixed-citation></ref><ref id="B38"><label>38.</label><mixed-citation>Turkoglu, M.; Pekmezci, E.; Kilic, S.; Dundar, C.; Sevinc, H. Effect of Ficus carica leaf extract on the gene expression of selected factors in HaCaT cells. J. Cosmet. Dermatol., 2017, 16(4), e54-e58. doi: 10.1111/jocd.12344 PMID: 28432719</mixed-citation></ref><ref id="B39"><label>39.</label><mixed-citation>Mujić, I.; Bavcon Kralj, M.; Jokić, S.; Jug, T.; ubarić, D.; Vidović, S.; ivković, J.; Jarni, K. Characterisation of volatiles in dried white varieties figs (Ficus carica L.). J. Food Sci. Technol., 2014, 51(9), 1837-1846. doi: 10.1007/s13197-012-0740-x PMID: 25190838</mixed-citation></ref><ref id="B40"><label>40.</label><mixed-citation>Sharma, S.H.; Kumar, J.S.; Chellappan, D.R.; Nagarajan, S. Molecular chemoprevention by morin - A plant flavonoid that targets nuclear factor kappa B in experimental colon cancer. Biomed. Pharmacother., 2018, 100, 367-373. doi: 10.1016/j.biopha.2018.02.035 PMID: 29453046</mixed-citation></ref><ref id="B41"><label>41.</label><mixed-citation>Vikas, P.V.; Bhangale, S.C.; Patil, V.R. Evaluation of anti-pyretic potential of ficus carica leaves. Int. J. Pharm. Sci. Res., 2010, 2(2)</mixed-citation></ref><ref id="B42"><label>42.</label><mixed-citation>Chawla, A.; Kaur, R.; Sharma, A.K. Ficus carica linn.: A review on its pharmacognostic, phytochemical and pharmacological aspects. Int. J. Pharm. Phytopharm. Res., 2012, 1(4), 215-232.</mixed-citation></ref><ref id="B43"><label>43.</label><mixed-citation>Jeong, M.R.; Kim, H.Y.; Cha, J.D. Antimicrobial activity of methanol extract from ficus carica leaves against oral bacteria. J. Bacteriol. Virol., 2009, 39(2), 97-102. doi: 10.4167/jbv.2009.39.2.97</mixed-citation></ref><ref id="B44"><label>44.</label><mixed-citation>Kuete, V.; Nana, F.; Ngameni, B.; Mbaveng, A.T.; Keumedjio, F.; Ngadjui, B.T. Antimicrobial activity of the crude extract, fractions and compounds from stem bark of Ficus ovata (Moraceae). J. Ethnopharmacol., 2009, 124(3), 556-561. doi: 10.1016/j.jep.2009.05.003 PMID: 19450673</mixed-citation></ref></ref-list></back></article>
