Centre de Biologie Structurale (CBS), CNRS, INSERM, University of Montpellier, Montpellier, France.
Methods Mol Biol. 2024;2836:253-281. doi: 10.1007/978-1-0716-4007-4_14.
Interactomics is bringing a deluge of data regarding protein-protein interactions (PPIs) which are involved in various molecular processes in all types of cells. However, this information does not easily translate into direct and precise molecular interfaces. This limits our understanding of each interaction network and prevents their efficient modulation. A lot of the detected interactions involve recognition of short linear motifs (SLiMs) by a folded domain while others rely on domain-domain interactions. Functional SLiMs hide among a lot of spurious ones, making deeper analysis of interactomes tedious. Hence, actual contacts and direct interactions are difficult to identify.Consequently, there is a need for user-friendly bioinformatic tools, enabling rapid molecular and structural analysis of SLiM-based PPIs in a protein network. In this chapter, we describe the use of the new webserver SLiMAn to help digging into SLiM-based PPIs in an interactive fashion.
互作组学带来了大量关于蛋白质-蛋白质相互作用（PPIs）的数据，这些相互作用涉及所有类型细胞中的各种分子过程。然而，这些信息不容易转化为直接和精确的分子界面。这限制了我们对每个相互作用网络的理解，并阻止了它们的有效调节。许多检测到的相互作用涉及折叠结构域识别短线性基序（SLiMs），而其他相互作用则依赖于结构域-结构域相互作用。功能 SLiMs 隐藏在大量虚假 SLiMs 中，使得互作组的深入分析变得繁琐。因此，实际的接触点和直接相互作用很难识别。因此，需要用户友好的生物信息学工具，以实现基于 SLiM 的 PPIs 在蛋白质网络中的快速分子和结构分析。在本章中，我们描述了使用新的网络服务器 SLiMAn 以交互式方式帮助挖掘基于 SLiM 的 PPIs。
