Tusnády Gábor E, Kalmár Lajos, Hegyi Hédi, Tompa Péter, Simon István
Institue of Enzymology, BRC, Hungarian Academy of Sciences, H-1113 Karolina út 29, Budapest, Hungary.
Bioinformatics. 2008 Jun 15;24(12):1469-70. doi: 10.1093/bioinformatics/btn202. Epub 2008 Apr 23.
The TOPDOM database is a collection of domains and sequence motifs located consistently on the same side of the membrane in alpha-helical transmembrane proteins. The database was created by scanning well-annotated transmembrane protein sequences in the UniProt database by specific domain or motif detecting algorithms. The identified domains or motifs were added to the database if they were uniformly annotated on the same side of the membrane of the various proteins in the UniProt database. The information about the location of the collected domains and motifs can be incorporated into constrained topology prediction algorithms, like HMMTOP, increasing the prediction accuracy.
The TOPDOM database and the constrained HMMTOP prediction server are available on the page http://topdom.enzim.hu
TOPDOM数据库是α螺旋跨膜蛋白中始终位于膜同一侧的结构域和序列基序的集合。该数据库是通过特定的结构域或基序检测算法扫描UniProt数据库中注释良好的跨膜蛋白序列创建的。如果在UniProt数据库中各种蛋白质的膜同一侧统一注释了所识别的结构域或基序，则将其添加到数据库中。所收集结构域和基序的位置信息可纳入受限拓扑预测算法，如HMMTOP，提高预测准确性。
TOPDOM数据库和受限HMMTOP预测服务器可在网页http://topdom.enzim.hu上获取。
