Mezulis Stefans, Sternberg Michael J E, Kelley Lawrence A
Structural Bioinformatics Group, Imperial College London, London SW7 2AZ, United Kingdom.
Structural Bioinformatics Group, Imperial College London, London SW7 2AZ, United Kingdom.
J Mol Biol. 2016 Feb 22;428(4):702-708. doi: 10.1016/j.jmb.2015.10.017. Epub 2015 Oct 27.
The identification of structurally similar proteins can provide a range of biological insights, and accordingly, the alignment of a query protein to a database of experimentally determined protein structures is a technique commonly used in the fields of structural and evolutionary biology. The PhyreStorm Web server has been designed to provide comprehensive, up-to-date and rapid structural comparisons against the Protein Data Bank (PDB) combined with a rich and intuitive user interface. It is intended that this facility will enable biologists inexpert in bioinformatics access to a powerful tool for exploring protein structure relationships beyond what can be achieved by sequence analysis alone. By partitioning the PDB into similar structures, PhyreStorm is able to quickly discard the majority of structures that cannot possibly align well to a query protein, reducing the number of alignments required by an order of magnitude. PhyreStorm is capable of finding 93±2% of all highly similar (TM-score>0.7) structures in the PDB for each query structure, usually in less than 60s. PhyreStorm is available at http://www.sbg.bio.ic.ac.uk/phyrestorm/.
鉴定结构相似的蛋白质能够提供一系列生物学见解，因此，将查询蛋白质与通过实验确定的蛋白质结构数据库进行比对是结构生物学和进化生物学领域常用的一项技术。PhyreStorm网络服务器旨在结合丰富直观的用户界面，针对蛋白质数据库（PDB）提供全面、最新且快速的结构比较。该工具旨在让生物信息学方面的新手生物学家能够使用一个强大的工具，以探索仅凭序列分析无法实现的蛋白质结构关系。通过将PDB划分为相似结构，PhyreStorm能够快速舍弃绝大多数与查询蛋白质不可能很好比对的结构，将所需比对数量减少一个数量级。对于每个查询结构，PhyreStorm能够在PDB中找到所有高度相似（TM分数>0.7）结构的93±2%，通常用时不到60秒。可通过http://www.sbg.bio.ic.ac.uk/phyrestorm/访问PhyreStorm。
