完整後設資料紀錄
DC 欄位 | 值 | 語言 |
---|---|---|
dc.contributor.author | Tung, Chi-Hua | en_US |
dc.contributor.author | Yang, Jinn-Moon | en_US |
dc.date.accessioned | 2014-12-08T15:13:44Z | - |
dc.date.available | 2014-12-08T15:13:44Z | - |
dc.date.issued | 2007-07-01 | en_US |
dc.identifier.issn | 0305-1048 | en_US |
dc.identifier.uri | http://dx.doi.org/10.1093/nar/gkm288 | en_US |
dc.identifier.uri | http://hdl.handle.net/11536/10618 | - |
dc.description.abstract | The fastSCOP is a web server that rapidly identifies the structural domains and determines the evolutionary superfamilies of a query protein structure. This server uses 3D-BLAST to scan quickly a large structural classification database (SCOP1.71 with <95% identity with each other) and the top 10 hit domains, which have different superfamily classifications, are obtained from the hit lists. MAMMOTH, a detailed structural alignment tool, is adopted to align these top 10 structures to refine domain boundaries and to identify evolutionary superfamilies. Our previous works demonstrated that 3D-BLAST is as fast as BLAST, and has the characteristics of BLAST (e.g. a robust statistical basis, effective search and reliable database search capabilities) in large structural database searches based on a structural alphabet database and a structural alphabet substitution matrix. The classification accuracy of this server is similar to 98% for 586 query structures and the average execution time is similar to 5. This server was also evaluated on 8700 structures, which have no annotations in the SCOP; the server can automatically assign 7311 (84%) proteins (9420 domains) to the SCOP superfamilies in 9.6 h. These results suggest that the fastSCOP is robust and can be a useful server for recognizing the evolutionary classifications and the protein functions of novel structures. The server is accessible at http://fastSCOP.life.nctu.edu.tw. | en_US |
dc.language.iso | en_US | en_US |
dc.title | fastSCOP: a fast web server for recognizing protein structural domains and SCOP superfamilies | en_US |
dc.type | Article | en_US |
dc.identifier.doi | 10.1093/nar/gkm288 | en_US |
dc.identifier.journal | NUCLEIC ACIDS RESEARCH | en_US |
dc.citation.volume | 35 | en_US |
dc.citation.issue | en_US | |
dc.citation.spage | W438 | en_US |
dc.citation.epage | W443 | en_US |
dc.contributor.department | 生物科技學系 | zh_TW |
dc.contributor.department | 生物資訊及系統生物研究所 | zh_TW |
dc.contributor.department | Department of Biological Science and Technology | en_US |
dc.contributor.department | Institude of Bioinformatics and Systems Biology | en_US |
dc.identifier.wosnumber | WOS:000255311500083 | - |
dc.citation.woscount | 11 | - |
顯示於類別: | 期刊論文 |