StavroX-A Software for Analyzing Crosslinked Products in Protein Interaction Studies
StavroX-A Software for Analyzing Crosslinked Products in Protein Interaction Studies
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DOI：
10.1007/s13361-011-0261-2
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发表时间：
2012-01-01
影响因子：
3.2
通讯作者：
Sinz, Andrea
中科院分区：
文献类型：
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作者：
Goetze, Michael;Pettelkau, Jens;Sinz, Andrea
化学交联与质谱相结合已经成熟成为一种获取蛋白质和蛋白质复合物的低分辨率结构信息的替代方法。然而，该策略的主要缺点之一仍然是缺乏能够处理交联反应混合物化学交联和酶消化后创建的大型 MS 数据集的软件。在这里，我们描述了一个名为 StavroX 的软件，它是专门为分析高度复杂的交联数据集而设计的。 StavroX 软件针对三种不同的生物系统进行了评估：(1) 钙调蛋白和源自 Munc13 的肽之间的复合物，(2) N 末端 β-层粘连蛋白片段，以及 (3) 鸟苷酸环化酶激活蛋白 2 和源自视网膜鸟苷酸环化酶的肽之间的复合物。我们表明，StavroX 软件具有易于使用的图形用户界面以及质谱 (MS) 和串联质谱 (MS/MS) 数据的高度自动化分析，因此在分析交联产品方面具有优势，从而缩短了分析时间。 StavroX 有望进一步推动化学交联方法成为蛋白质相互作用研究的常规技术。
Chemical crosslinking in combination with mass spectrometry has matured into an alternative approach to derive low-resolution structural information of proteins and protein complexes. Yet, one of the major drawbacks of this strategy remains the lack of software that is able to handle the large MS datasets that are created after chemical crosslinking and enzymatic digestion of the crosslinking reaction mixtures. Here, we describe a software, termed StavroX, which has been specifically designed for analyzing highly complex crosslinking datasets. The StavroX software was evaluated for three diverse biological systems: (1) the complex between calmodulin and a peptide derived from Munc13, (2) an N-terminal beta-laminin fragment, and (3) the complex between guanylyl cyclase activating protein-2 and a peptide derived from retinal guanylyl cyclase. We show that the StavroX software is advantageous for analyzing crosslinked products due to its easy-to-use graphical user interface and the highly automated analysis of mass spectrometry (MS) and tandem mass spectrometry (MS/MS) data resulting in short times for analysis. StavroX is expected to give a further push to the chemical crosslinking approach as a routine technique for protein interaction studies.