结构域相互作用数据库的产生、发展与应用

The Birth,Development and Applications of Domain-Domain Interaction Databases

结构域是进化上的保守序列单元,是蛋白质的结构和功能的标准组件.典型的两个蛋白质间的相互作用涉及特殊结构域间的结合,而且识别相互作用结构域对于在结构域水平上彻底理解蛋白质的功能与进化、构建蛋白质相互作用网络、分析生物学通路等十分重要.目前,依赖于对实验数据的进一步挖掘和对各种不同输入数据的计算预测,已识别出了一些相互作用/功能连锁结构域对,并由此构建了内容丰富、日益更新的结构域相互作用数据库.综述了产生结构域相互作用的8种计算预测方法.介绍了5个结构域相互作用公共数据库3DID、iPfam、InterDom、DIMA和DOMINE的有关信息和最新动态.实例概述了结构域相互作用在蛋白质相互作用计算预测、可信度评估,蛋白质结构域注释,以及在生物学通路分析中的应用.

Domains are evolutionarily conserved sequence units and they are structural and functional building blocks of proteins. Interaction between two proteins typically involves binding between specific domains, and identifying interacting domain pairs is an important step towards thoroughly understanding protein function and evolution, constructing protein-protein interaction （PPI） net-fforks, and analyzing pathway at the domain level. A number of interacting and/or functionally linked domain pairs have been identified and the information was organized and hosted in many domain-domain interactions （DDI） databases with the help of further mining experimental data and computational predictions from various input data. First, the 8 computational predicting methods used to acquire DDI data will be introduced. Then the introduction of DDI public databases, including 3DID, iPfam, InterDom, DIMA and DOMINE will be given. And finally, some examples are described about applications of DDI in computational predicting interacting protein pairs, assessment of the reliability for PPI, protein domain annotation, and in pathway study.