TOPDOM：蛋白质中保守定位结构域和基序的数据库。
TOPDOM: database of conservatively located domains and motifs in proteins.
作者信息
Varga Julia, Dobson László, Tusnády Gábor E
机构信息
'Momentum' Membrane Protein Bioinformatics Research Group, Institute of Enzymology, RCNS, HAS, Budapest H-1518, Hungary.
出版信息
Bioinformatics. 2016 Sep 1;32(17):2725-6. doi: 10.1093/bioinformatics/btw193. Epub 2016 Apr 12.
UNLABELLED
The TOPDOM database-originally created as a collection of domains and motifs located consistently on the same side of the membranes in α-helical transmembrane proteins-has been updated and extended by taking into consideration consistently localized domains and motifs in globular proteins, too. By taking advantage of the recently developed CCTOP algorithm to determine the type of a protein and predict topology in case of transmembrane proteins, and by applying a thorough search for domains and motifs as well as utilizing the most up-to-date version of all source databases, we managed to reach a 6-fold increase in the size of the whole database and a 2-fold increase in the number of transmembrane proteins.
AVAILABILITY AND IMPLEMENTATION
TOPDOM database is available at http://topdom.enzim.hu The webpage utilizes the common Apache, PHP5 and MySQL software to provide the user interface for accessing and searching the database. The database itself is generated on a high performance computer.
CONTACT
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
未标注
TOPDOM数据库最初创建为α-螺旋跨膜蛋白中始终位于膜同一侧的结构域和基序的集合，现在通过考虑球状蛋白中始终定位的结构域和基序进行了更新和扩展。通过利用最近开发的CCTOP算法来确定蛋白质类型并在跨膜蛋白情况下预测拓扑结构，通过对结构域和基序进行全面搜索以及利用所有源数据库的最新版本，我们成功使整个数据库的大小增加了6倍，跨膜蛋白的数量增加了2倍。
可用性和实现方式
TOPDOM数据库可在http://topdom.enzim.hu获取。该网页利用常见的Apache、PHP5和MySQL软件提供用于访问和搜索数据库的用户界面。数据库本身在高性能计算机上生成。
联系方式
补充信息
补充数据可在《生物信息学》在线获取。
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