C. T. Tarkaa, Damilare Adebayo Oyaniyi, R. A. Salaam, R. P. Ebuh, Olusola Abayomi Akangbe, Sayo Ebenezer Oladokun, Rodiat Omotola Sowemimo, Oluwaponmile Florence Ajayi
{"title":"利用网络药理学、分子对接、分子动力学模拟等方法研究姜黄治疗乳腺癌的分子靶点","authors":"C. T. Tarkaa, Damilare Adebayo Oyaniyi, R. A. Salaam, R. P. Ebuh, Olusola Abayomi Akangbe, Sayo Ebenezer Oladokun, Rodiat Omotola Sowemimo, Oluwaponmile Florence Ajayi","doi":"10.53388/pmr20230008","DOIUrl":null,"url":null,"abstract":"Background: To elucidate the molecular mechanisms of Curcuma longa ( C. longa ) in breast cancer treatment. Methods: Phytocompounds of C. longa were obtained from Dr. Duke’s Phytochemical and Ethnobotanical Database. Potential active targets were retrieved from Bindingdb, SEA and Swiss Target Prediction databases. Breast cancer targets were retrieved from the Therapeutic Target Database. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analyses were done using DAVID and KOBAS3.0 databases respectively. The Cytoscape software was used to construct the phytocompound-target-pathway network. The PyRx and Desmond software were utilized for molecular docking and molecular dynamics simulation respectively. Results: Out of one hundred and fifty-six phytocompounds, fifty-four modulated proteins involved in breast cancer. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analysis indicated C. longa exerts its therapeutic effect through regulating several key pathways. Molecular docking analysis revealed that most phytocompounds of C. longa had a good affinity with the key targets. Molecular dynamics simulation showed that ethinylestradiol formed stable ligand-protein complexes. Conclusion: The results of this study will enhance our understanding of the potential molecular mechanisms by which C. longa inhibits breast cancer and lay a foundation for future experimental studies.","PeriodicalId":59651,"journal":{"name":"精准医学研究","volume":"1 1","pages":""},"PeriodicalIF":0.0000,"publicationDate":"2023-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Elucidating the molecular targets of Curcuma longa for breast cancer treatment using network pharmacology, molecular docking and molecular dynamics simulation\",\"authors\":\"C. T. Tarkaa, Damilare Adebayo Oyaniyi, R. A. Salaam, R. P. Ebuh, Olusola Abayomi Akangbe, Sayo Ebenezer Oladokun, Rodiat Omotola Sowemimo, Oluwaponmile Florence Ajayi\",\"doi\":\"10.53388/pmr20230008\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"Background: To elucidate the molecular mechanisms of Curcuma longa ( C. longa ) in breast cancer treatment. Methods: Phytocompounds of C. longa were obtained from Dr. Duke’s Phytochemical and Ethnobotanical Database. Potential active targets were retrieved from Bindingdb, SEA and Swiss Target Prediction databases. Breast cancer targets were retrieved from the Therapeutic Target Database. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analyses were done using DAVID and KOBAS3.0 databases respectively. The Cytoscape software was used to construct the phytocompound-target-pathway network. The PyRx and Desmond software were utilized for molecular docking and molecular dynamics simulation respectively. Results: Out of one hundred and fifty-six phytocompounds, fifty-four modulated proteins involved in breast cancer. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analysis indicated C. longa exerts its therapeutic effect through regulating several key pathways. Molecular docking analysis revealed that most phytocompounds of C. longa had a good affinity with the key targets. Molecular dynamics simulation showed that ethinylestradiol formed stable ligand-protein complexes. Conclusion: The results of this study will enhance our understanding of the potential molecular mechanisms by which C. longa inhibits breast cancer and lay a foundation for future experimental studies.\",\"PeriodicalId\":59651,\"journal\":{\"name\":\"精准医学研究\",\"volume\":\"1 1\",\"pages\":\"\"},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2023-01-01\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"精准医学研究\",\"FirstCategoryId\":\"3\",\"ListUrlMain\":\"https://doi.org/10.53388/pmr20230008\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"\",\"JCRName\":\"\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"精准医学研究","FirstCategoryId":"3","ListUrlMain":"https://doi.org/10.53388/pmr20230008","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
引用次数: 0
摘要
背景:探讨姜黄(Curcuma longa)治疗乳腺癌的分子机制。方法:从Dr. Duke’s Phytochemical and ethno植物学数据库中获取龙骨草的化合物。从Bindingdb、SEA和Swiss Target Prediction数据库检索潜在活性靶点。乳腺癌靶点从治疗靶点数据库中检索。基因本体和京都基因与基因组百科全书路径富集分析分别使用DAVID和KOBAS3.0数据库进行。利用Cytoscape软件构建植物化合物-靶标-通路网络。利用PyRx和Desmond软件分别进行分子对接和分子动力学模拟。结果:在156种植物化合物中,54种调节蛋白与乳腺癌有关。基因本体论和京都基因基因组大百科的通路分析表明,龙舌兰通过调控几个关键通路发挥其治疗作用。分子对接分析表明,龙舌兰的大部分化合物与关键靶点具有良好的亲和性。分子动力学模拟表明,炔雌醇形成稳定的配体-蛋白复合物。结论:本研究结果将加深我们对龙骨草抑制乳腺癌的潜在分子机制的认识,为今后的实验研究奠定基础。
Elucidating the molecular targets of Curcuma longa for breast cancer treatment using network pharmacology, molecular docking and molecular dynamics simulation
Background: To elucidate the molecular mechanisms of Curcuma longa ( C. longa ) in breast cancer treatment. Methods: Phytocompounds of C. longa were obtained from Dr. Duke’s Phytochemical and Ethnobotanical Database. Potential active targets were retrieved from Bindingdb, SEA and Swiss Target Prediction databases. Breast cancer targets were retrieved from the Therapeutic Target Database. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analyses were done using DAVID and KOBAS3.0 databases respectively. The Cytoscape software was used to construct the phytocompound-target-pathway network. The PyRx and Desmond software were utilized for molecular docking and molecular dynamics simulation respectively. Results: Out of one hundred and fifty-six phytocompounds, fifty-four modulated proteins involved in breast cancer. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analysis indicated C. longa exerts its therapeutic effect through regulating several key pathways. Molecular docking analysis revealed that most phytocompounds of C. longa had a good affinity with the key targets. Molecular dynamics simulation showed that ethinylestradiol formed stable ligand-protein complexes. Conclusion: The results of this study will enhance our understanding of the potential molecular mechanisms by which C. longa inhibits breast cancer and lay a foundation for future experimental studies.