Domain annotation of trimeric autotransporter adhesins--daTAA.
BACKGROUND
Trimeric autotransporter adhesins (TAAs), such as Yersinia YadA, Neisseria NadA, Moraxella UspAs, Haemophilus Hia and Bartonella BadA, are important pathogenicity factors of proteobacteria. Their high sequence diversity and distinct mosaic-like structure lead to difficulties in the annotation of their sequences. These stem from the large number of short repeats, the presence of compositionally unusual coiled-coils, fuzzy domain boundaries and regions of seemingly low sequence complexity.


RESULTS
We have developed a workflow, named daTAA, for the accurate domain annotation of TAAs. Its core consists of manually curated alignments and of knowledge-based rules that enhance assignments made by sequence similarity. Compared to general domain annotation servers such as PFAM, daTAA captures more domains and provides more sensitive domain detection, as well as integrated and detailed coiled-coil assignments.


BACKGROUND
The daTAA server is freely accessible at http://toolkit.tuebingen.mpg.de/dataa
Szczesny
Pawel
P
Department of Protein Evolution, Max-Planck Institute for Developmental Biology, Spemannstr 35, 72076 Tuebingen, Germany.
Lupas
Andrei
A
D018829:Adhesins, Bacterial / Q000737:chemistry*; D000465:Algorithms; D000595:Amino Acid Sequence; D019281:Dimerization; D008969:Molecular Sequence Data; D017434:Protein Structure, Tertiary; D016415:Sequence Alignment / Q000379:methods*; D020539:Sequence Analysis, Protein / Q000379:methods*; D017386:Sequence Homology, Amino Acid; D012984:Software
D018829:Adhesins, Bacterial