3DinSight: an integrated relational database and search tool for the structure, function and properties of biomolecules
3DinSight: an integrated relational database and search tool for the structure, function and properties of biomolecules
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DOI：
10.1093/bioinformatics/14.2.188
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发表时间：
1998-01-01
期刊：
影响因子：
5.8
通讯作者：
Sarai, A
中科院分区：
文献类型：
--
作者：
An, JH;Nakama, T;Sarai, A
动机：尽管生物分子的结构、功能和性质的大量信息正在变得可用，但很难理解它们之间的关系。因此，我们尝试创建一个集成的关系数据库，搜索和可视化工具，3 DinSight，以帮助研究人员深入了解它们之间的关系。结果：我们已经收集了生物分子的结构，功能和性质的数据，并将它们实现为一个关系数据库系统。结构数据包含多个子集数据，例如蛋白质同源物、蛋白质-DNA复合物，以便于在特定类别的数据内进行搜索。功能数据包括蛋白质的基序序列和突变数据。此外，各种氨基酸属性被实现为关系表。万维网（WWW）界面使用户能够在这些数据中进行我们的各种搜索。基序序列和突变的位置被自动映射到结构上，并通过交互式查看器、VRML（虚拟现实建模语言）和RasMol在三维（3D）空间中可视化。在VRML的情况下，映射的3D对象被超链接到相应的文档数据。此外，氨基酸的性质，与结构，功能和突变位点，可以显示为图表。
Motivation: Although a large amount of information on the structure, function and properties of biomolecules is becoming available, it is difficult to understand the relationship between them. Thus, we have attempted to create an integrated relational database, search and visualization tool, 3 DinSight, to help researchers to gain insight into their relationship.Results: We have gathered data on the structure, function and properties of biomolecules, and implemented them into a relational database system. The structural data contain sever al subset data such as protein homologues, protein-DNA complex, in oi-del to enable searching within a specific class of data. The functional data include motif sequence and mutation data of proteins. Also, various amino acid properties are implemented as a relational table. The World Wide Web (WWW) interfaces enable users to carry our various kinds of searches among these data. The locations of motif sequences and mutations are automatically mapped on the structure, and visualized in three-dimensional (3D) space by inter-active viewers, VRML (Virtual Reality Modeling Language) and RasMol. In the case of VRML, the mapped 3D objects are hyperlinked to the corresponding document data. Also, amino acid properties, linked with structure, functional and mutation sites, can be displayed as graph plots.