Superior performance in protein homology detection with the Blocks Database servers
Superior performance in protein homology detection with the Blocks Database servers
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DOI：
10.1093/nar/26.1.309
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发表时间：
1998-01-01
影响因子：
14.9
通讯作者：
Henikoff, JG
中科院分区：
文献类型：
--
作者：
Henikoff, S;Pietrokovski, S;Henikoff, JG
Blocks数据库万维网（http：//www. blocks.fhcrc.org）和电子邮件（blocks@blocks.fhcrc.org）服务器提供用于基于代表蛋白质保守区域的比对区块来检测和分析蛋白质同源性的工具。在过去的一年中，搜索已扩大补充块数据库与块从打印数据库，共4754块从1163个家庭。来自Blocks和Prints数据库的块以及从提交给Block Maker的序列构建的块可用于使用LAMA对这些数据库进行块对块搜索，并用于查看徽标和引导树，最新蛋白质序列数据库的灵敏搜索是通过使用位置特异性评分矩阵直接链接到MAST sewer和使用共有序列直接链接到BLAST和PSI-BLAST sewer来进行的。嵌入式序列查询，利用胰蛋白酶家族来评估性能，我们说明了基于块的工具优于专家成对搜索或隐马尔可夫模型。
The Blocks Database World Wide Web (http://www. blocks.fhcrc.org) and Email (blocks@blocks.fhcrc.org) servers provide tools for the detection and analysis of protein homology based on alignment blocks representing conserved regions of proteins. During the past year, searching has been augmented by supplementation of the Blocks Database with blocks from the Prints Database, for a total of 4754 blocks from 1163 families. Blocks from both the Blocks and Prints Databases and blocks that are constructed from sequences submitted to Block Maker can be used for blocks-versus-blocks searching of these databases with LAMA, and for viewing logos and bootstrap trees, Sensitive searches of up-to-date protein sequence databanks are carried out via direct links to the MAST sewer using position-specific scoring matrices and to the BLAST and PSI-BLAST sewers using consensus-embedded sequence queries, Utilizing the trypsin family to evaluate performance, we illustrate the superiority of blocks-based tools over expert pairwise searching or Hidden Markov Models.