University of Grenoble Alpes, CNRS, CERMAV, 38000 Grenoble, France; Swiss Institute of Bioinformatics, 1227 Geneva, Switzerland; Computer Science Department, UniGe, 1227 Geneva, Switzerland.
University of Grenoble Alpes, CNRS, CERMAV, 38000 Grenoble, France; CEITEC, Masaryk University, 625 00 Brno, Czech Republic.
Structure. 2019 May 7;27(5):764-775.e3. doi: 10.1016/j.str.2019.02.002. Epub 2019 Mar 7.
Lectins with a β-propeller fold bind glycans on the cell surface through multivalent binding sites and appropriate directionality. These proteins are formed by repeats of short domains, raising questions about evolutionary duplication. However, these repeats are difficult to detect in translated genomes and seldom correctly annotated in sequence databases. To address these issues, we defined the blade signature of the five types of β-propellers using 3D-structural data. With these templates, we predicted 3,887 β-propeller lectins in 1,889 species and organized this information in a searchable online database. The data reveal a widespread distribution of β-propeller lectins across species. Prediction also emphasizes multiple architectures and led to the discovery of a β-propeller assembly scenario. This was confirmed by producing and characterizing a predicted protein coded in the genome of Kordia zhangzhouensis. The crystal structure uncovers an intermediate in the evolution of β-propeller assembly and demonstrates the power of our tools.
具有β 三叶桨折叠结构的凝集素通过多价结合位点和适当的方向性结合细胞表面上的糖。这些蛋白质由短结构域的重复形成，这引发了关于进化复制的问题。然而，这些重复在翻译的基因组中很难检测到，并且在序列数据库中很少被正确注释。为了解决这些问题，我们使用 3D 结构数据定义了五种β 三叶桨的桨叶特征。有了这些模板，我们预测了 1889 个物种中的 3887 种β 三叶桨凝集素，并将这些信息组织在一个可搜索的在线数据库中。这些数据揭示了β 三叶桨凝集素在物种中的广泛分布。预测还强调了多种架构，并导致发现了β 三叶桨组装的场景。通过产生和表征在 Kordia zhangzhouensis 基因组中编码的预测蛋白，证实了这一点。晶体结构揭示了β 三叶桨组装进化的中间阶段，并展示了我们工具的威力。
