Domain Annotation of Trimeric Autotransporter Adhesins--daTAA

Overview

Journal Bioinformatics

Publisher Oxford University Press

Specialty Biology

Date 2008 Apr 10

PMID 18397894

Citations 55

Authors

Pawel Szczesny

Andrei Lupas

Affiliations

Soon will be listed here.

Abstract

Motivation: 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.

Availability: The daTAA server is freely accessible at http://toolkit.tuebingen.mpg.de/dataa

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