Department of Genome Sciences , University of Washington , Seattle , Washington 98105 , United States.
Anal Chem. 2018 May 15;90(10):6028-6034. doi: 10.1021/acs.analchem.7b04991. Epub 2018 Apr 27.
Chemical cross-linking combined with mass spectrometry provides a method to study protein structures and interactions. The introduction of cleavable bonds in a cross-linker provides an avenue to decouple released peptide masses from their precursor species, greatly simplifying the downstream search, allowing for whole proteome investigations to be performed. Typically, these experiments have been challenging to carry out, often utilizing nonstandard methods to fully identify cross-linked peptides. Mango is an open source software tool that extracts precursor masses from chimeric spectra generated using cleavable cross-linkers, greatly simplifying the downstream search. As it is designed to work with chimeric spectra, Mango can be used on traditional high-resolution tandem mass spectrometry (MS/MS) capable mass spectrometers without the need for additional modifications. When paired with a traditional proteomics search engine, Mango can be used to identify several thousand cross-linked peptide pairs searching against the entire Escherichia coli proteome. Mango provides an avenue to perform whole proteome cross-linking experiments without specialized instrumentation or access to nonstandard methods.
化学交联结合质谱分析为研究蛋白质结构和相互作用提供了一种方法。交联剂中引入可裂解键为释放的肽段质量与其前体物质的分离提供了途径，大大简化了下游搜索，使得整个蛋白质组学的研究成为可能。通常，这些实验很难进行，通常需要使用非标准方法来完全鉴定交联肽。Mango 是一个开源软件工具，可从使用可裂解交联剂生成的嵌合光谱中提取前体质量，大大简化了下游搜索。由于它旨在与嵌合光谱一起使用，因此无需额外修改即可在传统的高分辨率串联质谱（MS/MS）质谱仪上使用 Mango。当与传统的蛋白质组学搜索引擎结合使用时，Mango 可以在搜索整个大肠杆菌蛋白质组时鉴定数千对交联肽对。Mango 提供了一种无需专用仪器或无法使用非标准方法即可进行整个蛋白质组交联实验的途径。
