基于网络药理学与分子对接探讨乌梢蛇治疗类风湿关节炎的作用机制OA
Mechanism of Zaocysdhumnades in the Treatment of Rheumatoid Arthritis Based on Network Pharmacology and Molecular Docking
目的 基于网络药理学以及分子对接技术探究乌梢蛇治疗类风湿关节炎的有效成分及作用机制.方法 通过Herb数据库及文献报道对乌梢蛇的化合物进行筛选,然后在PubChem数据库下载化合物的分子结构式,将其导入 SwissTargetPrediction 数据库获得有效成分所对应的靶点,利用 DisGeNET、OMIM 数据库筛选类风湿关节炎的相关靶点;使用在线作图工具Venny2.1.0 获得乌梢蛇与类风湿关节炎共同靶点,通过Cytoscape3.10.0 软件构建"药物-成分-靶点"网络,利用STRING平台与Cytoscape3.10.0 软件构建蛋白-蛋白相互作用网络,通过DAVID数据库对乌梢蛇与类风湿关节炎的交集靶点进行GO功能和KEGG通路富集分析,采用CB-DOCK2 进行关键成分与有效靶点的分子对接研究.结果 共得到乌梢蛇 27 种成分及 372个潜在靶点,类风湿关节炎相关靶点 1596 个,乌梢蛇-类风湿关节炎共同靶点 99 个;乌梢蛇中的核心成分为β-谷甾醇、腺苷、二氢阿魏酸等;其中GAPDH、NR3C1 和PLG是PPI网络中 Betweenness最大的 3 个靶基因;GO分析结果显示,在生物过程(BP)中,涉及对外源性刺激的反应、蛋白水解、基因表达的正调控等;在细胞组分(CC)中,则涉及质膜、细胞质、核质等;在分子功能(MF)中,主要涉及酶结合、锌离子结合、相同的蛋白质结合等;KEGG富集分析总共得到 133 条通路,主要涉及的信号通路包括细胞凋亡、IL-17 信号通路、癌症通路、松弛素信号通路等;分子对接结果表明,乌梢蛇的主要有效成分能分别与核心靶点结合,其结合能均小于-5.0 kcal/mol.结论 乌梢蛇可能是通过调节GAPDH、NR3C1、PLG等靶点,发挥抑制炎症反应、调节免疫功能等作用来治疗类风湿关节炎.
Objective To explore the effective components and mechanism of Zaocysdhumnades in the treatment of rheumatoid arthritis based on network pharmacology and molecular docking technology.Methods The compounds of Zaocysdhumnades were screened by Herb database and literature reports,and then the molecular structure of the compounds was downloaded from PubChem database,and then imported into SwissTargetPrediction database to obtain the targets corresponding to the active ingredients,and DisGeNET and OMIM databases were used to screen the related targets of rheumatoid arthritis.In addition,the online mapping tool Venny2.1.0 was used to obtain the common targets of Zaocysdhumnades and rheumatoid arthritis.The"drug-component-target"network was constructed by Cytoscape3.10.0 software,and the protein-protein interaction network was constructed by String platform and Cytoscape3.10.0 software.The GO function and KEGG pathway enrichment analysis of the intersection targets of Zaocysdhumnades and rheumatoid arthritis were carried out by DAVID database.CB-DOCK2 was used to study the molecular docking of key components and effective targets.Results After screening,27 components and 372 potential targets,1596 rheumatoid arthritis-related targets and 99 common targets of Zaocysdhumnades-rheumatoid arthritis related were obtained.The core components in Zaocysdhumnades were β-sitosterol,adenosine,dihydroferulic acid,etc.,and the three target genes with the largest betweenness in the PPI network were GAPDH,NR3C1,and PLG.The results of GO analysis showed that in the biological process(BP),it involved the response to exogenous stimulation,proteolysis,positive regulation of gene expression,etc.In the cell component(CC),it involved plasma membrane,cytoplasm,nucleoplasm,etc.In molecular function(MF),it mainly involved enzyme binding,zinc ion binding,the same protein binding,etc.A total of 133 pathways were obtained by KEGG enrichment analysis,which mainly involved signaling pathways including apoptosis,IL-17 signaling pathway,cancer pathway,relaxin signaling pathway,etc.The results of molecular docking showed that the main active ingredients of Zaocysdhumnades could bind to the core targets respectively,and the binding energy was less than-5.0 kcal/mol.Conclusion Zaocysdhumnades may be used to treat rheumatoid arthritis by regulating the targets of GAPDH,NR3C1,and PLG,inhibiting inflammatory response and regulating immune function.
张翠;喻杨;罗进芳
贵州中医药大学药学院,贵州 贵阳 550025贵州中医药大学基础医学院,贵州 贵阳 550025贵州中医药大学药学院,贵州 贵阳 550025||贵州中医药大学基础医学院,贵州 贵阳 550025
中医学
乌梢蛇类风湿性关节炎网络药理学靶点预测分子对接
ZaocysdhumnadesRheumatoid arthritisNetwork pharmacologyTarget predictionMolecular docking
《医学信息》 2024 (019)
27-33 / 7
1.贵州省基础研究(自然科学)项目(编号:黔科合基础-ZK[2022]一般477);2.贵州中医药大学国家与省级科技创新人才团队培育项目(编号:贵中医TD合字[2022]004 号)
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