Sorbonne Université, CNRS, IBPS, UMR 7238, Laboratoire de Biologie Computationnelle et Quantitative (LCQB), 75005 Paris, France.
Nucleic Acids Res. 2022 Jul 5;50(W1):W412-W419. doi: 10.1093/nar/gkac481.
Residue coevolution within and between proteins is used as a marker of physical interaction and/or residue functional cooperation. Pairs or groups of coevolving residues are extracted from multiple sequence alignments based on a variety of computational approaches. However, coevolution signals emerging in subsets of sequences might be lost if the full alignment is considered. iBIS2Analyzer is a web server dedicated to a phylogeny-driven coevolution analysis of protein families with different evolutionary pressure. It is based on the iterative version, iBIS2, of the coevolution analysis method BIS, Blocks in Sequences. iBIS2 is designed to iteratively select and analyse subtrees in phylogenetic trees, possibly large and comprising thousands of sequences. With iBIS2Analyzer, openly accessible at http://ibis2analyzer.lcqb.upmc.fr/, the user visualizes, compares and inspects clusters of coevolving residues by mapping them onto sequences, alignments or structures of choice, greatly simplifying downstream analysis steps. A rich and interactive graphic interface facilitates the biological interpretation of the results.
残基共进化在蛋白质内部和之间被用作物理相互作用和/或残基功能合作的标记。根据各种计算方法，可以从多重序列比对中提取出成对或成组的共进化残基。然而，如果考虑整个比对，则可能会丢失在序列子集出现的共进化信号。iBIS2Analyzer 是一个专门用于具有不同进化压力的蛋白质家族的系统发育驱动共进化分析的网络服务器。它基于共进化分析方法 BIS（序列中的块）的迭代版本 iBIS2。iBIS2 旨在迭代选择和分析系统发育树中的子树，这些子树可能很大，包含数千个序列。通过 iBIS2Analyzer，可以公开访问 http://ibis2analyzer.lcqb.upmc.fr/，用户可以通过将共进化残基映射到所选的序列、比对或结构上来可视化、比较和检查共进化残基簇，大大简化了下游分析步骤。丰富而交互式的图形界面有助于对结果进行生物学解释。
