Dali/FSSP classification of three-dimensional protein folds
Dali/FSSP classification of three-dimensional protein folds
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DOI：
10.1093/nar/25.1.231
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发表时间：
1997-01-01
影响因子：
14.9
通讯作者：
Sander, C
中科院分区：
文献类型：
--
作者：
Holm, L;Sander, C
FSSP数据库呈现了三维蛋白质折叠的持续更新的结构分类。它是使用一种自动结构比较程序（Dali）推导出来的，该程序用于对蛋白质数据库（PDB）中6000多个三维坐标集进行两两相互比较。与序列相关的蛋白质家族由813条具有代表性的蛋白质链所涵盖。基于结构相似性的层次聚类产生了一个定义了253个折叠类别的折叠树。对于每条具有代表性的蛋白质链，在数据库中都有一个条目，其中包含它与PDB中结构上相近的蛋白质的结构 - 结构比对信息。该数据库可通过万维网浏览器和匿名文件传输协议（ftp）在线访问。折叠空间的概述以及各个数据集为研究分子进化的趋异和趋同方面提供了丰富的信息来源，并确定了有用的测试集以及评估序列 - 序列或序列 - 结构比对正确性的一个事实标准。
The FSSP database presents a continuously updated structural classification of three-dimensional protein folds. It is derived using an automatic structure comparison program (Dali) for the all-against-all comparison of over 6000 three-dimensional coordinate sets in the Protein Data Bank (PDB). Sequence-related protein families are covered by a representative set of 813 protein chains. Hierachical clustering based on structural similarities yields a fold tree that defines 253 fold classes. For each representative protein chain, there is a database entry containing structure-structure alignments with its structural neighbours in the PDB. The database is accessible online through World Wide Web browsers and by anonymous ftp (file transfer protocol). The overview of fold space and the individual data sets provide a rich source of information for the study of both divergent and convergent aspects of molecular evolution, and define useful test sets and a standard of truth for assessing the correctness of sequence-sequence or sequence-structure alignments.