A combined in silico / in vitro approach unveils common molecular requirements for efficient BVDV RdRp binding of linear aromatic N-polycyclic systems
作者:A. Carta、I. Briguglio、S. Piras、P. Corona、R. Ibba、E. Laurini、M. Fermeglia、S. Pricl、N. Desideri、E.M. Atzori、P. La Colla、G. Collu、I. Delogu、R. Loddo
DOI:10.1016/j.ejmech.2016.03.080
日期:2016.7
according to which two hydrogen bond acceptors and one hydrophobic aromatic feature are shared by all molecular series in binding the viral polymerase. The pharmacophoric information was used to retrieve a putative binding site on the surface of the BVDV RdRp and to guide compound docking within the protein binding site. The affinity of all compounds towards the enzyme was scored via molecular dynamics-based
在这项工作中,我们介绍和讨论一整套新的和以前合成的化合物,它们分别属于5个不同的线性芳族N-多环系统分子类别,可有效抑制牛病毒性腹泻病毒(BVDV)感染。耦合的计算机/体外研究人员使用分子生物学原理来解释所有分子对BVDV RNA依赖性RNA聚合酶(RdRp)NS5B的显着亲和力。我们最初开发了三维共有特征的药效团模型,根据该模型,两个分子结合病毒聚合酶时,两个氢键受体和一个疏水性芳香族特征将共享。药效学信息用于检索BVDV RdRp表面上的推定结合位点,并指导化合物对接在蛋白质结合位点内。通过基于分子动力学的模拟对所有化合物对酶的亲和力进行了评分,显示出与体外EC 50的高度相关性数据。确定参与抑制剂结合的蛋白质残基的相互作用谱,突出显示了氨基酸R295和Y674是两个基本的H键供体,而两个疏水腔HC1(残基A221,I261,I287和Y289)和HC2(残基V216) ,Y303,V