Wang Yang, Hu Xue-Jia, Zou Xu-Dong, Wu Xian-Hui, Ye Zhi-Qiang, Wu Yun-Dong
Lab of Computational Chemistry and Drug Design, Laboratory of Chemical Genomics, Peking University Shenzhen Graduate School, Shenzhen, 518055, P. R. China.
Lab of Computational Chemistry and Drug Design, Laboratory of Chemical Genomics, Peking University Shenzhen Graduate School, Shenzhen, 518055, P. R. China
Nucleic Acids Res. 2015 Jan;43(Database issue):D339-44. doi: 10.1093/nar/gku1023. Epub 2014 Oct 27.
WD40-repeat proteins, as one of the largest protein families, often serve as platforms to assemble functional complexes through the hotspot residues on their domain surfaces, and thus play vital roles in many biological processes. Consequently, it is highly required for researchers who study WD40 proteins and protein-protein interactions to obtain structural information of WD40 domains. Systematic identification of WD40-repeat proteins, including prediction of their secondary structures, tertiary structures and potential hotspot residues responsible for protein-protein interactions, may constitute a valuable resource upon this request. To achieve this goal, we developed a specialized database WDSPdb (http://wu.scbb.pkusz.edu.cn/wdsp/) to provide these details of WD40-repeat proteins based on our recently published method WDSP. The WDSPdb contains 63,211 WD40-repeat proteins identified from 3383 species, including most well-known model organisms. To better serve the community, we implemented a user-friendly interactive web interface to browse, search and download the secondary structures, 3D structure models and potential hotspot residues provided by WDSPdb.
WD40重复蛋白作为最大的蛋白家族之一，常常通过其结构域表面的热点残基充当组装功能复合物的平台，因此在许多生物学过程中发挥着至关重要的作用。因此，研究WD40蛋白和蛋白质-蛋白质相互作用的研究人员迫切需要获得WD40结构域的结构信息。系统鉴定WD40重复蛋白，包括预测其二级结构、三级结构以及负责蛋白质-蛋白质相互作用的潜在热点残基，可能会根据这一需求构成一个有价值的资源。为实现这一目标，我们开发了一个专门的数据库WDSPdb（http://wu.scbb.pkusz.edu.cn/wdsp/），以基于我们最近发表的方法WDSP提供WD40重复蛋白的这些详细信息。WDSPdb包含从3383个物种中鉴定出的63211个WD40重复蛋白，包括大多数著名的模式生物。为了更好地服务于科学界，我们实现了一个用户友好的交互式网络界面，以浏览、搜索和下载WDSPdb提供的二级结构、三维结构模型和潜在热点残基。
