Pereira Joana, Lupas Andrei N
Department of Protein Evolution, Max-Planck-Institute for Developmental Biology, Tübingen 72076, Germany.
Bioinformatics. 2021 Apr 5;36(24):5618-5622. doi: 10.1093/bioinformatics/btaa1085.
β-Propellers are found in great variety across all kingdoms of life. They assume many cellular roles, primarily as scaffolds for macromolecular interactions and catalysis. Despite their diversity, most β-propeller families clearly originated by amplification from the same ancient peptide-the 'blade'. In cluster analyses, β-propellers of the WD40 superfamily always formed the largest group, to which some important families, such as the α-integrin, Asp-box and glycoside hydrolase β-propellers connected weakly. Motivated by the dramatic growth of sequence databases we revisited these connections, with a special focus on VCBS-like β-propellers, which have not been analysed for their evolutionary relationships so far.
We found that VCBS-like form a supercluster with integrin-like β-propellers and tachylectins, clearly delimited from the superclusters formed by WD40 and Asp-Box β-propellers. Connections between the three superclusters are made mainly through PQQ-like β-propeller. Our results present a new, greatly expanded view of the β-propeller classification landscape.
Supplementary data are available at Bioinformatics online.
β-螺旋桨在所有生命王国中种类繁多。它们承担着许多细胞功能，主要作为大分子相互作用和催化的支架。尽管它们具有多样性，但大多数β-螺旋桨家族显然起源于同一个古老肽段——“叶片”的扩增。在聚类分析中，WD40超家族的β-螺旋桨总是形成最大的群体，一些重要的家族，如α-整合素、Asp-盒和糖苷水解酶β-螺旋桨与该群体的联系较弱。受序列数据库急剧增长的推动，我们重新审视了这些联系，特别关注了VCBS样β-螺旋桨，到目前为止尚未对其进化关系进行分析。
我们发现，VCBS样与整合素样β-螺旋桨和速激肽形成一个超级簇，与由WD40和Asp-盒β-螺旋桨形成的超级簇明显区分开来。这三个超级簇之间的联系主要通过PQQ样β-螺旋桨建立。我们的结果呈现了β-螺旋桨分类格局的一个新的、大大扩展的观点。
补充数据可在《生物信息学》在线获取。
