Prediction, assessment and validation of protein interaction maps in bacteria
Prediction, assessment and validation of protein interaction maps in bacteria
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DOI：
10.1016/s0022-2836(02)01009-4
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发表时间：
2002-11-01
影响因子：
5.6
通讯作者：
Legrain, P
中科院分区：
文献类型：
--
作者：
Wojcik, J;Boneca, IG;Legrain, P
高通量蛋白质组学技术，特别是酵母双杂交系统，产生了大量的蛋白质相互作用数据。许多基因组的完整测序提出了这样的网络可以在生物体之间转移的程度的问题。我们试图回答这个问题，使用实验得出的幽门螺杆菌相互作用图和最近描述的相互作用域配置文件对（IDPP）的方法来预测大肠杆菌的虚拟地图。广泛的文献报道了E.大肠杆菌中进行了评估，所有预测的相互作用，并验证IDPP方法，聚类蛋白质结构域的序列和连接的相似性。IDPP方法具有比仅基于蛋白质同源性的方法更好的启发式价值。将IDPP方法进一步应用于空肠弯曲菌，以生成虚拟相互作用图谱。对E. coli和C. jejuni导致了新的功能分配的提议。最后，跨生物体的蛋白质-蛋白质相互作用图的预测使我们能够验证原始实验图上的一些相互作用。(C)2002爱思唯尔科技有限公司版权所有。
High-throughput proteomics technologies, especially the yeast two-hybrid system, produce large volumes of protein-protein interaction data organized in networks. The complete sequencing of many genomes raises questions about the extent to which such networks can be transferred between organisms. We attempted to answer this question using the experimentally derived Helicobacter pylori interaction map and the recently described interacting domain profile pair (IDPP) method to predict a virtual map for Escherichia coli. The extensive literature concerning E. coli was used to assess all predicted interactions and to validate the IDPP method, which clusters protein domains by sequence and connectivity similarities. The IDPP method has a much better heuristic value than methods solely based on protein homology. The IDPP method was further applied to Campylobacter jejuni to generate a virtual interaction map. An in-depth comparison of the chemotaxis pathways predicted in E. coli and C. jejuni led to the proposition of new functional assignments. Finally, the prediction of protein-protein interaction maps across organisms enabled us to validate some of the interactions on the original experimental map. (C) 2002 Elsevier Science Ltd. All rights reserved.