天然产物研究与开发 ›› 2020, Vol. 32 ›› Issue (7): 1099-1103.doi: 10.16333/j.1001-6880.2020.7.002

所属专题: No.1

• 专题研究 • 上一篇    下一篇

三种七叶一枝花活性成分抗新型冠状病毒的分子对接预测

司渊1,2,王纠3,张亮1,2,刘雪文2,4,刘莹1,2,3,4*   

  1. 1湖北医药学院 基础医学院;2湖北医药学院 胚胎干细胞湖北省重点实验室;3湖北医药学院 武当特色中药研究湖北省重点实验室;4湖北医药学院 生物医药研究院,
  • 出版日期:2020-07-28 发布日期:2020-07-30
  • 基金资助:
    湖北省高等学校优秀中青年科技创新团队计划(T2019 15);武当特色中药研究湖北省重点实验室开放课题(WDCM2019008);湖北医药学院PI项目(HBMUPI201 806)

Molecular docking prediction of three active components of Paris polyphylla against SARS-CoV-2 

SI Yuan1,2,WANG Jiu3,ZHANG Liang1,2,LIU Xue-wen2,4,LIU Ying1,2,3,4*   

  1. 1 School of Basic Medical Sciences; 2 Hubei Key Laboratory of Embryonic Stem Cell Research; 3Hubei Key Laboratory of Wudang Local Chinese Medicine Research and Institute of Medicinal Chemistry; 4Biomedical Research Institute,Hubei University of Medicine,Shiyan 442000,China

  • Online:2020-07-28 Published:2020-07-30

摘要:

以分子对接法探索中草药七叶一枝花治疗新型冠状病毒SARS-CoV-2的活性化合物。SARS-CoV-2主要通过其S蛋白与人体细胞表面的Angiotensin-converting enzyme 2(ACE2)受体结合。本研究通过分子对接模拟预测了七叶一枝花中富含的3种重楼皂苷(I、VI、VII)与ACE2的结合亲和力。结果表明:三种重楼皂苷均能够与ACE2结合,结合自由能均低于-8 kcal/mol。三种化合物共同结合的氨基酸残基包括:Pro-346、Thr-347、Ala-348、Asp-350、Asn-394、His-401、Glu-402。三种药物结合以上位点的结构主要是共同的母核结构起着关键作用。另外,重楼皂苷I与ACE2结合所需能量最低,而重楼皂苷VI与靶蛋白作用的关键氨基酸数量最多及形成的氢键数量最多。因此,基于这三种有效成分进行结构设计有望获得高效的SARS-CoV-2抑制剂,以期为COVID-19治疗药物发现提供研究基础。

关键词: SARS-CoV-2, COVID-19, 重楼皂苷, 分子对接

Abstract:

To explore the active compounds of Chinese herbal medicine Paris polyphylla in the treatment of SARS-CoV-2.SARS-CoV-2 mainly binds to the angiotensin-converting enzyme 2 (ACE2) receptor on the surface of human cells through its S protein.In this study,the molecular docking simulation method was used to predict the binding affinity of ACE2 and three kinds of polyphyllin (I,VI,VII) rich in Paris polyphylla.The results show that the three polyphyllin can bind well with ACE2,and the binding free energy is lower than -8 kcal/mol.The amino acid residues combined by the three compounds include: Pro-346,Thr-347,Ala-348,Asp-350,Asn-394,His-401,Glu-402.The core structure shared by the three drugs plays a key role in binding the above sites.In addition,the energy required for the binding of polyphyllin I to ACE2 is the lowest,while the number of key amino acids and the number of hydrogen bonds formed by the interaction of polyphyllin VI with the target protein are the largest.Therefore,structural design based on these three active ingredients is expected to obtain highly effective SARS-CoV-2 inhibitors,in order to provide a research basis for the discovery of COVID-19 therapeutic drugs.

Key words: SARS-CoV-2, COVID-19, polyphyllin, molecular docking

中图分类号:  R932