{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,1]],"date-time":"2026-01-01T10:05:48Z","timestamp":1767261948376},"reference-count":17,"publisher":"Oxford University Press (OUP)","issue":"10","license":[{"start":{"date-parts":[[2016,10,1]],"date-time":"2016-10-01T00:00:00Z","timestamp":1475280000000},"content-version":"vor","delay-in-days":3098,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc\/2.0\/uk\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2008,5,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>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.<\/jats:p>\n               <jats:p>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.<\/jats:p>\n               <jats:p>Availability: The daTAA server is freely accessible at http:\/\/toolkit.tuebingen.mpg.de\/dataa<\/jats:p>\n               <jats:p>Contact: \u00a0andrei.lupas@tuebingen.mpg.de<\/jats:p>\n               <jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btn118","type":"journal-article","created":{"date-parts":[[2008,4,9]],"date-time":"2008-04-09T00:14:59Z","timestamp":1207700099000},"page":"1251-1256","source":"Crossref","is-referenced-by-count":89,"title":["Domain annotation of trimeric autotransporter adhesins\u2014daTAA"],"prefix":"10.1093","volume":"24","author":[{"given":"Pawel","family":"Szczesny","sequence":"first","affiliation":[{"name":"1 Department of Protein Evolution, Max-Planck Institute for Developmental Biology, Spemannstr 35, 72076 Tuebingen, Germany and 2Department of Bioinformatics, Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland"},{"name":"1 Department of Protein Evolution, Max-Planck Institute for Developmental Biology, Spemannstr 35, 72076 Tuebingen, Germany and 2Department of Bioinformatics, Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland"}]},{"given":"Andrei","family":"Lupas","sequence":"additional","affiliation":[{"name":"1 Department of Protein Evolution, Max-Planck Institute for Developmental Biology, Spemannstr 35, 72076 Tuebingen, Germany and 2Department of Bioinformatics, Institute of Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland"}]}],"member":"286","published-online":{"date-parts":[[2008,4,8]]},"reference":[{"key":"2023020210043919000_B1","doi-asserted-by":"crossref","first-page":"403","DOI":"10.1016\/S0022-2836(05)80360-2","article-title":"Basic local alignment search tool","volume":"215","author":"Altschul","year":"1990","journal-title":"J. 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