Dataset Information

DOUTfinder--identification of distant domain outliers using subsignificant sequence similarity.

ABSTRACT: DOUTfinder is a web-based tool facilitating protein domain detection among related protein sequences in the twilight zone of sequence similarity. The sequence set required for this analysis can be provided by the user or will be collected using PSI-BLAST if a single sequence is given as an input. The obtained sequence family is analyzed for known Pfam and SMART domains, and the thereby identified subsignificant domain similarities are evaluated further. Domains with several subthreshold hits in the query set are ranked based on a sum-score function and likely homologous domains are suggested according to established cut-offs. By providing a post-filtering procedure for subsignificant domain hits DOUTfinder allows the detection of non-trivial domain relationships and can thereby lead to new insights into the function and evolution of distantly related sequence families. DOUTfinder is available at http://mendel.imp.ac.at/dout/.

SUBMITTER: Novatchkova M

PROVIDER: S-EPMC1538801 | biostudies-literature | 2006 Jul

REPOSITORIES: biostudies-literature

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DOUTfinder--identification of distant domain outliers using subsignificant sequence similarity.

Novatchkova Maria M Schneider Georg G Fritz Richard R Eisenhaber Frank F Schleiffer Alexander A

Nucleic acids research 20060701 Web Server issue

DOUTfinder is a web-based tool facilitating protein domain detection among related protein sequences in the twilight zone of sequence similarity. The sequence set required for this analysis can be provided by the user or will be collected using PSI-BLAST if a single sequence is given as an input. The obtained sequence family is analyzed for known Pfam and SMART domains, and the thereby identified subsignificant domain similarities are evaluated further. Domains with several subthreshold hits in ...[more]

PMID: 16844996

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Dataset Information

DOUTfinder--identification of distant domain outliers using subsignificant sequence similarity.

Publications

DOUTfinder--identification of distant domain outliers using subsignificant sequence similarity.

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