Análise computacional de interações proteína–ligante envolvendo compostos de Acmella oleracea (L.) R.K. Jansen com relevância antitumoral
DOI:
https://doi.org/10.47236/2594-7036.2026.v10.2016Palavras-chave:
Acmella oleracea, ADMET, Carcinogênese, Docking molecular, Produtos naturais, Triagem in silicoResumo
A prospecção de compostos naturais com potencial antitumoral tem se destacado como uma estratégia promissora no desenvolvimento de novos agentes bioativos. Nesse contexto, o presente estudo teve como objetivo avaliar, por meio de abordagens in silico, o potencial de metabólitos derivados de Acmella oleracea frente a alvos moleculares associados à carcinogênese. Foram selecionados 18 compostos da espécie, submetidos a estudos de docking molecular utilizando o software AutoDock Vina contra três proteínas relevantes: PMS2 (1H7U), PI3Kβ (4AJW e 4BFR) e COX-2 (3LN1). A validação do protocolo foi realizada por redocking, apresentando valores de RMSD compatíveis com a literatura. Os resultados indicaram que compostos fenólicos e flavonoídicos glicosilados apresentaram melhor desempenho nos cálculos de ancoragem, destacando-se o ligante 2, que exibiu os menores valores de energia estimada de ligação e padrões interacionais favoráveis nos diferentes alvos. Adicionalmente, a avaliação preditiva de propriedades farmacocinéticas e toxicológicas (ADMET) revelou que o ligante 4 apresentou o perfil mais equilibrado em termos de biodisponibilidade, permeabilidade e segurança preditiva. De forma integrada, os resultados sugerem que os compostos avaliados apresentam potencial in silico relevante para interação com alvos associados ao câncer, sendo o ligante 2 promissor sob a perspectiva de reconhecimento molecular e o ligante 4, sob a ótica farmacocinética. Esses achados reforçam a importância de abordagens integradas na priorização de candidatos bioativos e indicam a necessidade de validação experimental complementar.Downloads
Métricas
Referências
AGU, P. C.; AFIUKWA, C. A.; ORJI, O. U.; EZEH, E. M.; OFOKE, I. H.; OGBU, C. O.; UGWUJA, E. I.; AJA, P. M. Molecular docking as a tool for the discovery of molecular targets of nutraceuticals in diseases management. Scientific Reports, [s. l.], v. 13, art. 13398, 2023. DOI: https://doi.org/10.1038/s41598-023-40160-2. DOI: https://doi.org/10.1038/s41598-023-40160-2
AKTAR, M. A. et al. Pharmacological and phytochemical review of Acmella oleracea: a comprehensive analysis of its therapeutic potential. Discover Applied Sciences, v. 6, n. 1, p. 412, 2024. DOI: https://doi.org/10.1007/s42452-024-06108-5. DOI: https://doi.org/10.1007/s42452-024-06108-5
APLIN, C. et al. Evolving experimental techniques for structure-based drug design. Journal of Physical Chemistry B, Washington, v. 126, n. 35, p. 6599-6607, 2022. DOI: https://doi.org/10.1021/acs.jpcb.2c04344. DOI: https://doi.org/10.1021/acs.jpcb.2c04344
AZAD, I. et al. Updates on drug designing approach through computational strategies: a review. Future Science OA, Londres, v. 9, n. 5, 2023. DOI: https://doi.org/10.2144/fsoa-2022-0085. DOI: https://doi.org/10.2144/fsoa-2022-0085
BELLUMORI, M. et al. Acmella oleracea (L.) R.K. Jansen: alkylamides and phenolic compounds in aerial parts and roots of in vitro seedlings. Journal of Pharmaceutical and Biomedical Analysis, [s. l.], v. 220, art. 114991, 2022. DOI: https://doi.org/10.1016/j.jpba.2022.114991. DOI: https://doi.org/10.1016/j.jpba.2022.114991
BRAY, F. et al. Global cancer statistics 2022: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries. CA: A Cancer Journal for Clinicians, Hoboken, v. 74, n. 3, p. 229-263, 2024. DOI: https://doi.org/10.3322/caac.21834. DOI: https://doi.org/10.3322/caac.21834
BUCKLEY, M. E.; NDUKWE, A. R. N.; NAIR, P. C.; RANA, S.; FAIRFULL-SMITH, K. E.; GANDHI, N. S. Comparative assessment of docking programs for docking and virtual screening of ribosomal oxazolidinone antibacterial agents. Antibiotics, v. 12, art. 463, 2023. DOI: https://doi.org/10.3390/antibiotics12030463. DOI: https://doi.org/10.3390/antibiotics12030463
CHEN, H. et al. Structure-based design of anticancer drugs based on β-elemene: research foundations and development potential. Journal of Pharmaceutical Analysis, Amsterdã, 2025. DOI: https://doi.org/10.1016/j.jpha.2025.101325. DOI: https://doi.org/10.1016/j.jpha.2025.101325
CREANZA, T. M. et al. Structure-based prediction of hERG-related cardiotoxicity. Journal of Chemical Information and Modeling, [s. l.], v. 62, n. 18, p. 4390-4403, 2022. DOI: https://doi.org/10.1021/acs.jcim.1c00744. DOI: https://doi.org/10.1021/acs.jcim.1c00744
DAINA, A.; MICHIELIN, O.; ZOETE, V. SwissADME: a free web tool to evaluate pharmacokinetics, drug-likeness and medicinal chemistry friendliness of small molecules. Scientific Reports, [s. l.], v. 7, n. 1, p. 42717, 2017. DOI: https://doi.org/10.1038/srep42717. DOI: https://doi.org/10.1038/srep42717
FROMM, M. F. P-glycoprotein: a defense mechanism limiting oral bioavailability and CNS accumulation of drugs. International Journal of Clinical Pharmacology and Therapeutics, [s. l.], v. 38, n. 2, p. 69-74, 2000. DOI: https://doi.org/10.5414/cpp38069. DOI: https://doi.org/10.5414/CPP38069
GIMENO, A. et al. Minimizing the entropy penalty for ligand binding: lessons from the molecular recognition of the histo blood-group antigens by human Galectin-3. Angewandte Chemie International Edition, Weinheim, v. 58, n. 22, p. 7268-7272, 2019. DOI: https://doi.org/10.1002/anie.201900723. DOI: https://doi.org/10.1002/anie.201900723
GU, Y. et al. admetSAR3.0: a comprehensive platform for exploration, prediction and optimization of chemical ADMET properties. Nucleic Acids Research, [s. l.], v. 52, n. W1, p. W432-W438, 2024. DOI: https://doi.org/10.1093/nar/gkae298. DOI: https://doi.org/10.1093/nar/gkae298
GUARNÉ, A.; JUNOP, M. S.; YANG, W. Structure and function of the N-terminal 40 kDa fragment of human PMS2: a monomeric GHL ATPase. The EMBO Journal, Oxford, v. 20, n. 19, p. 5521-5531, 2001. DOI: https://doi.org/10.1093/emboj/20.19.5521. DOI: https://doi.org/10.1093/emboj/20.19.5521
HOSACK, T. et al. Drug-induced liver injury: a comprehensive review. Pharmaceuticals, [s. l.], v. 16, n. 5, p. 689, 2023. DOI: https://doi.org/10.1177/17562848231163410. DOI: https://doi.org/10.1177/17562848231163410
JERÔNIMO, L. B. et al. Acmella oleracea (L.) R.K. Jansen essential oils: chemical composition, antioxidant, and cytotoxic activities. Biochemical Systematics and Ecology, [s. l.], v. 112, art. 104775, 2024. DOI: 10.1016/j.bse.2023.104775. DOI: https://doi.org/10.1016/j.bse.2023.104775
JIN, K.; QIAN, C.; LIN, J.; LIU, B. Cyclooxygenase-2–Prostaglandin E2 pathway: a key player in tumor-associated immune cells. Frontiers in Oncology, Lausanne, v. 13, p. 1099811, 2023. DOI: https://doi.org/10.3389/fonc.2023.1099811. DOI: https://doi.org/10.3389/fonc.2023.1099811
LEE, B.-W. Botany, ethnopharmacology, phytochemistry, and biological activities of Acmella oleracea: a comprehensive review. Molecules, [s. l.], v. 31, n. 4, art. 677, 2026. DOI: 10.3390/molecules31040677. DOI: https://doi.org/10.3390/molecules31040677
LI, H. et al. Targeting PI3K family with small-molecule inhibitors in cancer therapy: current clinical status and future directions. Molecular Cancer, Londres, v. 23, n. 1, 2024. DOI: https://doi.org/10.1186/s12943-024-02072-1. DOI: https://doi.org/10.1186/s12943-024-02072-1
LIPINSKI, C. A. et al. Experimental and computational approaches to estimate solubility and permeability in drug discovery and development settings. Advanced Drug Delivery Reviews, [s. l.], v. 46, n. 1-3, p. 3-26, 2001. DOI: https://doi.org/10.1016/S0169-409X(00)00129-0. DOI: https://doi.org/10.1016/S0169-409X(00)00129-0
MA, Z.; AJIBADE, A.; ZOU, X. Docking strategies for predicting protein-ligand interactions and their application to structure-based drug design. Communications in Information and Systems, v. 24, n. 3, p. 199-230, 2024. DOI: https://doi.org/10.4310/cis.241021221101. DOI: https://doi.org/10.4310/CIS.241021221101
MARTIS, E. A. F.; TÉLETCHÉA, S. Ten quick tips to perform meaningful and reproducible molecular docking calculations. PLoS Computational Biology, v. 21, n. 5, p. e1013030, 2025. DOI: https://doi.org/10.1371/journal.pcbi.1013030. DOI: https://doi.org/10.1371/journal.pcbi.1013030
MILLER, E. B. et al. Enabling structure-based drug discovery utilizing predicted models. Cell, Cambridge, v. 187, n. 3, p. 521-525, 2024. DOI: https://doi.org/10.1016/j.cell.2023.12.034. DOI: https://doi.org/10.1016/j.cell.2023.12.034
MIRANDA-FILHO, A. et al. The GLOBOCAN 2022 cancer estimates: data sources, methods, and a snapshot of the cancer burden worldwide. International Journal of Cancer, Hoboken, v. 156, n. 7, 2024. DOI: https://doi.org/10.1002/ijc.35278. DOI: https://doi.org/10.1002/ijc.35278
NASCIMENTO, L. E. S. et al. Phytochemical profile of different anatomical parts of jambu (Acmella oleracea (L.) R.K. Jansen): a comparison between hydroponic and conventional cultivation using PCA and cluster analysis. Food Chemistry, [s. l.], v. 327, 2020. DOI: https://doi.org/10.1016/j.foodchem.2020.127393. DOI: https://doi.org/10.1016/j.foodchem.2020.127393
ONUFRIEV, A. V.; ALEXOV, E. Protonation and pK changes in protein-ligand binding. Quarterly Reviews of Biophysics, [s. l.], v. 46, n. 2, p. 181-209, 2013. DOI: 10.1017/S0033583513000024. DOI: https://doi.org/10.1017/S0033583513000024
PATIL, P. A.; KUMBHAR, B. V. Structure based drug design and machine learning approaches for identifying natural inhibitors against the human αβIII tubulin isotype. Scientific Reports, Londres, v. 15, n. 1, 2025. DOI: https://doi.org/10.1038/s41598-025-17708-5. DOI: https://doi.org/10.1038/s41598-025-17708-5
PINHEIRO, M. S. da S.; MOYSÉS, D. A.; GALUCIO, N. C. R.; SANTOS, W. O.; PINA, J. R. S.; OLIVEIRA, L. C.; SILVA, S. Y. S.; SILVA, S. da C.; FRAZÃO, N. F.; MARINHO, P. S. B.; NOVAIS, A. L. F.; KHAYAT, A. S.; MARINHO, A. M. do R. Cytotoxic and molecular evaluation of spilanthol obtained from Acmella oleracea (L.) R.K. Jansen (jambu) in human gastric cancer cells. Natural Product Research, [s. l.], v. 38, n. 10, p. 1806-1811, 2024. DOI: 10.1080/14786419.2023.2222220. DOI: https://doi.org/10.1080/14786419.2023.2222220
RAMÍREZ, D.; CABALLERO, J. Is it reliable to take the molecular docking top scoring position as the best solution without considering available structural data? Molecules, Basel, v. 23, n. 5, p. 1038, 2018. DOI: https://doi.org/10.3390/molecules23051038. DOI: https://doi.org/10.3390/molecules23051038
SHAMSIAN, S.; SOKOUTI, B.; DASTMALCHI, S. Benchmarking different docking protocols for predicting the binding poses of ligands complexed with cyclooxygenase enzymes. BioImpacts, Tabriz, v. 14, p. 29955, 2023. DOI: https://doi.org/10.34172/bi.2023.29955. DOI: https://doi.org/10.34172/bi.2023.29955
SILVA, R. C. da; SALLET, L. A. P.; SOUSA, K. P. de. Efeitos da amora (Morus spp.) no controle dos sintomas da menopausa: uma revisão integrativa. Revista Sítio Novo, Palmas, v. 9, p. e1687, 2025. DOI: https://doi.org/10.47236/2594-7036.2025.v9.1687. DOI: https://doi.org/10.47236/2594-7036.2025.v9.1687
SILVEIRA, G. E.; BARROSO, M. A. de S. Upcycling de subprodutos da agroindústria da Amazônia e do Cerrado: microrrevisão de tecnologias e impactos socioeconômicos. Revista Sítio Novo, Palmas, v. 10, p. e1896, 2026. DOI: https://doi.org/10.47236/2594-7036.2026.v10.1896. DOI: https://doi.org/10.47236/2594-7036.2026.v10.1896
SUNG, H. et al. Global cancer statistics 2020: GLOBOCAN estimates of incidence and mortality worldwide for 36 cancers in 185 countries. CA: A Cancer Journal for Clinicians, Hoboken, v. 71, n. 3, p. 209-249, 2021. DOI: https://doi.org/10.3322/caac.21660. DOI: https://doi.org/10.3322/caac.21660
TROTT, O.; OLSON, A. J. AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading. Journal of Computational Chemistry, [s. l.], v. 31, n. 2, p. 455-461, 2010. DOI: https://doi.org/10.1002/jcc.21334. DOI: https://doi.org/10.1002/jcc.21334
TRUONG, N. T. H. et al. Effects of chemotherapy agents on circulating leukocyte populations: potential implications for the success of CAR-T cell therapies. Cancers, Basel, v. 13, n. 9, p. 2225, 2021. DOI: https://doi.org/10.3390/cancers13092225. DOI: https://doi.org/10.3390/cancers13092225
VEBER, D. F. et al. Molecular properties that influence the oral bioavailability of drug candidates. Journal of Medicinal Chemistry, [s. l.], v. 45, n. 12, p. 2615-2623, 2002. DOI: https://doi.org/10.1021/jm020017n. DOI: https://doi.org/10.1021/jm020017n
VIJAY, U.; RAMESH, M.; DURGADEVI, R. Microbial mutagenicity assay: Ames test. Bio-protocol, [s. l.], v. 8, n. 17, e2997, 2018. DOI: 10.21769/BioProtoc.2763. DOI: https://doi.org/10.21769/BioProtoc.2763
VITTORIO, S. et al. Addressing docking pose selection with structure-based deep learning: recent advances, challenges and opportunities. Computational and Structural Biotechnology Journal, v. 23, p. 2141-2151, 2024. DOI: https://doi.org/10.1016/j.csbj.2024.05.024. DOI: https://doi.org/10.1016/j.csbj.2024.05.024
WALLERSTEIN, J. et al. Entropy-entropy compensation between the protein, ligand, and solvent degrees of freedom fine-tunes affinity in ligand binding to Galectin-3C. JACS Au, Washington, v. 1, n. 4, p. 484-500, 2021. DOI: https://doi.org/10.1021/jacsau.0c00094. DOI: https://doi.org/10.1021/jacsau.0c00094
WINKLER, D. A. Ligand entropy is hard but should not be ignored. Journal of Chemical Information and Modeling, Washington, v. 60, n. 10, p. 4421-4423, 2020. DOI: https://doi.org/10.1021/acs.jcim.0c01146. DOI: https://doi.org/10.1021/acs.jcim.0c01146
YANG, C.; CHEN, E. A.; ZHANG, Y. Protein-ligand docking in the machine-learning era. Molecules, Basel, v. 27, n. 14, p. 4568, 2022. DOI: https://doi.org/10.3390/molecules27144568. DOI: https://doi.org/10.3390/molecules27144568
ZEIGER, E. The Ames test and the regulation of chemicals. Mutation Research/Genetic Toxicology and Environmental Mutagenesis, [s. l.], v. 841, p. 43-48, 2019. DOI: 10.1016/j.mrgentox.2019.05.007. DOI: https://doi.org/10.1016/j.mrgentox.2019.05.007
Downloads
Arquivos adicionais
Publicado
Como Citar
Edição
Seção
Licença
Copyright (c) 2026 Vitória Ramos de Moura Santos, Tiago dos Reis Almeida Almeida, Luana Priscilla Rodrigues Macedo, Ana Lívia Ferreira dos Santos

Este trabalho está licenciado sob uma licença Creative Commons Attribution 4.0 International License.
Permite o compartilhamento, adaptação e uso para quaisquer fins, inclusive comerciais, desde que feita a devida atribuição aos autores e à Revista Sítio Novo.
Os autores declaram que o trabalho é original, não foi previamente publicado em parte ou no todo, exceto em servidores de preprints reconhecidos, desde que declarado, e que nenhum outro manuscrito similar de sua autoria está publicado ou em processo de avaliação por outro periódico, seja impresso ou eletrônico.
Declaram que não violaram nem infringiram nenhum tipo de direito de propriedade de outras pessoas, e que todas as citações no texto são fatos verdadeiros ou baseados em pesquisas de exatidão cientificamente considerável.
Os autores mantêm os direitos autorais dos manuscritos publicados nesta revista, permitindo o uso irrestrito de seu conteúdo, desde que citada a autoria original e a fonte da publicação.















