蛋白质结构-序列比对的HSSP数据库。
The HSSP database of protein structure-sequence alignments.
作者信息
Schneider R, Sander C
机构信息
Protein Design Group, European Molecular Biology Laboratory, Heidelberg, Germany.
出版信息
Nucleic Acids Res. 1996 Jan 1;24(1):201-5. doi: 10.1093/nar/24.1.201.
Abstract
HSSP is a derived database merging structural three dimensional (3-D) and sequence one dimensional(1-D) information. For each protein of known 3-D structure from the Protein Data Bank (PDB), the database has a multiple sequence alignment of all available homologues and a sequence profile characteristic of the family. The list of homologues is the result of a database search in Swissprot using a position-weighted dynamic programming method for sequence profile alignment (MaxHom). The database is updated frequently. The listed homologues are very likely to have the same 3-D structure as the PDB protein to which they have been aligned. As a result, the database is not only a database of aligned sequence families, but also a database of implied secondary and tertiary structures covering 27% of all Swissprot-stored sequences.
摘要
HSSP是一个合并了三维结构（3-D）和一维序列（1-D）信息的衍生数据库。对于蛋白质数据库（PDB）中每个已知三维结构的蛋白质，该数据库都有所有可用同源物的多序列比对以及该家族的序列概况特征。同源物列表是使用位置加权动态规划方法进行序列概况比对（MaxHom）在Swissprot中进行数据库搜索的结果。该数据库会频繁更新。列出的同源物很可能与它们所比对的PDB蛋白质具有相同的三维结构。因此，该数据库不仅是一个比对序列家族的数据库，也是一个涵盖了Swissprot中存储序列27%的隐含二级和三级结构的数据库。
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