Author(s):
Samsul Hadi, Deni Setiawan, Pratika Viogenta, Amalia Khairunnisa, Kunti Nastiti
Email(s):
samsul.hadi@ulm.ac.id
DOI:
10.52711/0974-360X.2025.00833
Address:
Samsul Hadi1*, Deni Setiawan2, Pratika Viogenta3, Amalia Khairunnisa4, Kunti Nastiti5
1,2,3,4Department of Pharmacy, Faculty of Mathematics and Natural Sciences, Lambung Mangkurat University Banjarbaru, South Kalimantan, Indonesia.
5Department of Pharmacy, Faculty of Health, Sari Mulia University, Indonesia.
*Corresponding Author
Published In:
Volume - 18,
Issue - 12,
Year - 2025
ABSTRACT:
Hepatitis is caused by several factors, including viral infections, chemical compounds, drugs, fats, and genetics. Both developing and developed countries are affected by this disease, highlighting the need for research on compounds with potential hepatoprotective properties. Therefore, this research aimed to screen hepatic enzyme inhibitor compounds CYP2E1 from the genus Combretum. In order to identify hepatoprotective compounds, computational methods can be used. The materials used were compounds derived from the genus Combretum and the CYP2E1 enzyme with the code 3 gph, the Autodock Vina docking method, and Yasara molecular dynamics were applied. The results included 98 compounds from Combretum. Active compounds were screened based on pharmacophore, druglikeness, and absorption predictions, which yielded 25 compounds. Docking showed 5 compounds with the lowest binding energy, including C00002886; C00015209; C00015319; C00015609; and C00015686. This research showed that 3 compounds from Combretum exhibit potential as hepatoprotective, including C00002886, C00015319, and C00015686.
Cite this article:
Samsul Hadi, Deni Setiawan, Pratika Viogenta, Amalia Khairunnisa, Kunti Nastiti. Prediction of Combretum Activity as a Hepatoprotective through Screening of Active Compounds and Stabilization of Binding. Research Journal Pharmacy and Technology. 2025;18(12):5778-4. doi: 10.52711/0974-360X.2025.00833
Cite(Electronic):
Samsul Hadi, Deni Setiawan, Pratika Viogenta, Amalia Khairunnisa, Kunti Nastiti. Prediction of Combretum Activity as a Hepatoprotective through Screening of Active Compounds and Stabilization of Binding. Research Journal Pharmacy and Technology. 2025;18(12):5778-4. doi: 10.52711/0974-360X.2025.00833 Available on: https://rjptonline.org/AbstractView.aspx?PID=2025-18-12-23
REFERENCES:
1. Katarey D, Verma S. Drug-induced liver injury. Clin Med (Northfield Il) [Internet]. 2016;16(6, Supplement):s104–9. Available from: https://www.sciencedirect.com/science/article/pii/S1470211824023376
2. Gerussi A, Natalini A, Antonangeli F, Mancuso C, Agostinetto E, Barisani D, et al. Immune-Mediated Drug-Induced Liver Injury: Immunogenetics and Experimental Models. Int J Mol Sci. 2021 Apr 27; 22: 4557.
3. Lin J, Wu JF, Zhang Q, Zhang HW, Cao GW. Virus-related liver cirrhosis: molecular basis and therapeutic options. World J Gastroenterol. 2014; Jun; 20(21): 6457–69.
4. Rotundo L, Pyrsopoulos N. Liver injury induced by paracetamol and challenges associated with intentional and unintentional use. World J Hepatol. 2020; Apr; 12(4): 125–36.
5. Kobayashi A, Suzuki Y, Sugai S. Specificity of transaminase activities in the prediction of drug-induced hepatotoxicity. J Toxicol Sci. 2020; 45(9): 515–37.
6. Pingili RB, Vemulapalli S, Gadamsetty M, Presingu D, Katuri R, Rachamsetty V, et al. Chlorzoxazone reduced the paracetamol-induced toxicity via competitive inhibition of CYP2E1-mediated metabolism. Futur J Pharm Sci. 2023; Apr 17; 9.
7. Ramachandran A, Jaeschke H. Mechanisms of acetaminophen hepatotoxicity and their translation to the human pathophysiology. J Clin Transl Res. 2017; Feb; 3(Suppl 1): 157–69.
8. Iorga A, Dara L, Kaplowitz N. Drug-Induced Liver Injury: Cascade of Events Leading to Cell Death, Apoptosis or Necrosis. Int J Mol Sci. 2017; May; 18(5).
9. Kalko K, Oksana M, Derymedvid L, Zolotaikina M, Gontova T, Mashtaler V V, et al. A Screening Study of Hepatoprotective Activity of Liquid Extract from Common Tansy Tanacetum vulgare L. Herb in the setting of Subchronic Hepatitis in Rats. Res J Pharm Technol. 2018; Jan 1; 11: 4393.
10. Ujowundu F, Ujowundu C, Ogugua V, Nwaoguikpe R. Aqueous Extract of Combretum dolichopentalum Leaf -a Potent Inhibitor of Carbon Tetrachloride Induced Hepatotoxicity in Rats. J Appl Pharm Sci [Internet]. 2021; Feb 12; 1(10): 114–7. Available from: https://japsonline.com/abstract.php?article_id=309&sts=2
11. Sini M, Nwodo OF., Alumanah EO. Hepatoprotective activity of aqueous extract of Combretum sericeum roots against paracetamol induced hepatic damage in rats. J Sci Res Stud. 2017; Mar 1; 4(2): 40–6.
12. Rajalingam D, Ramachandran V, Subramani P. Evaluation of hepatoprotective and antioxidant effect of Combretum albidum G. Don against CCL4 induced hepatotoxicity in rats. Int J Pharm Pharm Sci. 2016; Sep 1; 8: 218.
13. Adebisi I, Ugwah-Oguejiofor C. In vivo Hepatoprotective Effect of Combretum micranthum Leave Extract. FASEB J. 2021; May 1; 35(S1).
14. Adnyana IK, Tezuka Y, Banskota AH, Tran KQ, Kadot S. Hepatoprotective constituents of the seeds of Combretum quadrangulare. Biol Pharm Bull. 2000; Nov; 23(11): 1328–32.
15. Idoh K, Dosseh K, Kpatcha T, Agbonon A, Gbeassor M. Protective effect of Combretum Hypopilinum diels: Root bark extract against CCl4-Induced hepatotoxicity in wistar rats. Pharmacognosy Res. 2018; Jul 1; 10: 325–31.
16. Kesavan K, Jayanthi S. Structure Based Virtual Screening and Molecular Dynamics Studies to Identify Novel APE1 Inhibitor from Seaweeds as Anti-glioma Agent. Res J Pharm Tech. 2017; Jun; 10(8): 2474–8.
17. Land H, Humble MS. YASARA: A Tool to Obtain Structural Guidance in Biocatalytic Investigations. Methods Mol Biol. 2018; 1685: 43–67.
18. Eberhardt J, Santos-Martins D, Tillack AF, Forli S. AutoDock Vina 1.2.0: New Docking Methods, Expanded Force Field, and Python Bindings. J Chem Inf Model [Internet]. 2021 Aug 23; 61(8): 3891–8. Available from: https://doi.org/10.1021/acs.jcim.1c00203
19. Abdul-Hammed M, Adedotun IO, Olajide M, Irabor CO, Afolabi TI, Gbadebo IO, et al. Virtual screening, ADMET profiling, PASS prediction, and bioactivity studies of potential inhibitory roles of alkaloids, phytosterols, and flavonoids against COVID-19 main protease (M(pro)). Nat Prod Res. 2022; Jun; 36(12): 3110–6.
20. Komari N, Hadi E, Bhusari S, Mustikasari K, Putera G. Antihypertensive Activity of Peptides Derived from Toman Fish Albumin (Channa micropeltes): In-silico Angiotensin-Converting Enzyme Inhibitory Study. Int J DRUG Deliv Technol. 2024; Sep 25; 14: 1505–10.
21. Krishnan A, Dharmaraj S, Jayanthi S. Deciphering the impact of R324L Mutation in Polycystin-1PKD Domain associated with Autosomal Dominant Polycystic Kidney Disease(ADPKD): A Molecular Dynamics Perspective. Res J Pharm Technol. 2017; Sep 1; 10: 3089–94.
22. Jayasurya S, Keerthi K, Rambabu M, Jayanthi S. Identification of ZAP-70 Inhibitor from Macroalgae through Docking and Molecular Dynamics Studies. Res J Pharm Technol. 2017; Jan 1; 10: 4162.
23. Hadi S, Setiawan D, Viogenta P, Sunardi S, Nastiti K, Nisa K, et al. Molecular Docking and Dynamics Study of Compounds from Combretum indicum var. B Seeds as Alcohol Dehydrogenase Inhibitors: http://www.doi.org/10.26538/tjnpr/v7i11.11. Trop J Nat Prod Res [Internet]. 2023; Dec 1; 7(11 SE-Articles):5087–96. Available from: https://tjnpr.org/index.php/home/article/view/3020
24. Sahu R, Jain S, Jain D. Design of some Apigenin derivatives as selective DPP-IV Inhibitors by Pharmacophore Modelling and its Validation through Molecular Dynamics Simulation. Res J Pharm Technol. 2023; Aug 31; 3535–43.
25. Odhar HA, Hashim AF, Ahjel SW, Humadi SS. Molecular docking and dynamics simulation analysis of the human FXIIa with compounds from the Mcule database. Bioinformation. 2023; 19(2): 160–6.
26. Nandhini S, Radha S, Vadivu R. Docking of Hematoporphyrin on Various Anticancer Drugs Targeting Enzymes. Asian J Pharm Res. 2016; Jun; 6(3): 123–30.
27. Ifeanyi O, Amaku J, Christopher Onyemeziri A. In Silico Geometry Optimization, Excited-State Properties of (2 E )- N -Hydroxy-3-[3-(Phenylsulfamoyl) Phenyl] prop-2-Enamide (Belinostat) and its Molecular Docking Studies with Ebola Virus Glycoprotein. Asian J Pharm Res. 2015; Jan 1; 5: 131.
28. Lohith N, Kumar L, Verma R. Design, Molecular Docking, ADME Analysis and Molecular Dynamics Studies of Novel Acetylated Schiff bases as COX-2 inhibitors. Res J Pharm Technol. 2020; Apr 17; 13: 1901.
29. Arba M, Jasriati J. Structure-based pharmacophore modelling for identifying VEGFR2 inhibitor. Res J Pharm Technol. 2020; 13(7): 3129–34.
30. Wang Y, Shao H, Zhang C, Liu F, Zhao J, Zhu S, et al. Molecular dynamics for electrocatalysis: Mechanism explanation and performance prediction. Energy Rev [Internet]. 2023; 2(3): 100028. Available from: https://www.sciencedirect.com/science/article/pii/S2772970223000159
31. Agu PC, Afiukwa CA, Orji OU, Ezeh EM, Ofoke IH, Ogbu CO, et al. Molecular docking as a tool for the discovery of molecular targets of nutraceuticals in diseases management. Sci Rep. 2023; Aug; 13(1): 13398.
32. Patadiya N, Vaghela V. Design, in-silico ADME Study and molecular docking study of novel quinoline-4-on derivatives as Factor Xa Inhibitor as Potential anti-coagulating agents. Asian J Pharm Res. 2022; Aug 14; 12: 207–11.
33. Aljuboori S. Synthesis, Antimicrobial Evolution, Defibrillation Threshold Studies, Docking Studies, Silico Admet Analysis and PER-Metabolism Study of Some New Dihydropyrmidine Derivatives. Int J Drug Deliv Technol. 2020; Mar 25; 10: 21–32.
34. Jung J, Kobayashi C, Sugita Y. Optimal Temperature Evaluation in Molecular Dynamics Simulations with a Large Time Step. J Chem Theory Comput [Internet]. 2019; Jan 8; 15(1): 84–94. Available from: https://doi.org/10.1021/acs.jctc.8b00874
35. Müller WA, Sarkis JR, Marczak LDF, Muniz AR. Molecular dynamics insights on temperature and pressure effects on electroporation. Biochim Biophys Acta - Biomembr [Internet]. 2022; 1864(12): 184049. Available from: https://www.sciencedirect.com/science/article/pii/S0005273622001870
36. Khelfallah A, Aouay B, Kebieche M, Fetoui H. CYP2E1 inhibition and NF_κB Signaling Pathway are Involved in the Protective Molecular Effect of Origanum floribundum against Acetaminophen-induced acute Hepatotoxicity in Rats. Iran J Pharm Res IJPR. 2021; 20(3): 577–91.
37. Rahman MA, Kodidela S, Sinha N, Haque S, Shukla PK, Rao R, et al. Plasma exosomes exacerbate alcohol- and acetaminophen-induced toxicity via CYP2E1 pathway. Sci Rep [Internet]. 2019; 9(1): 6571. Available from: https://doi.org/10.1038/s41598-019-43064-2
38. Diesinger T, Buko V, Lautwein A, Dvorsky R, Belonovskaya E, Lukivskaya O, et al. Drug targeting CYP2E1 for the treatment of early-stage alcoholic steatohepatitis. PLoS One. 2020; 15(7): e0235990.
39. Thursz M, Forrest E, Roderick P, Day C, Austin A, O’Grady J, et al. The clinical effectiveness and cost-effectiveness of STeroids Or Pentoxifylline for Alcoholic Hepatitis (STOPAH): a 2 × 2 factorial randomised controlled trial. Health Technol Assess. 2015; Dec; 19(102): 1–104.
40. Kriska T, Thomas M, Falck J, Campbell W. Deactivation of 12(S)-HETE through (-1)-hydroxylation and -oxidation in alternatively activated macrophages. J Lipid Res. 2018; Feb 22; 59: jlr.M081448.
41. Obara K, Ao L, Ogawa T, Ikarashi T, Yamaki F, Matsuo K, et al. Assessment of Inhibitory Effects of Hypnotics on Acetylcholine-Induced Contractions in Isolated Rat Urinary Bladder Smooth Muscle. Biol Pharm Bull. 2019; 42(2): 280–8.