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Nucleic Acids Research, 2003, Vol. 31, No. 1 359-362
© 2003 Oxford University Press

SDAP: database and computational tools for allergenic proteins

Ovidiu Ivanciuc, Catherine H. Schein and Werner Braun*

Sealy Center for Structural Biology, Department of Human Biological Chemistry and Genetics, University of Texas Medical Branch, 310 University Boulevard, Galveston, TX 77555-1157, USA

*To whom correspondence should be addressed. Tel: +1 409 747 6810; Fax: +1 409 747 6850; Email: werner{at}newton.utmb.edu

ABSTRACT

SDAP (Structural Database of Allergenic Proteins) is a web server that provides rapid, cross-referenced access to the sequences, structures and IgE epitopes of allergenic proteins. The SDAP core is a series of CGI scripts that process the user queries, interrogate the database, perform various computations related to protein allergenic determinants and prepare the output HTML pages. The database component of SDAP contains information about the allergen name, source, sequence, structure, IgE epitopes and literature references and easy links to the major protein (PDB, SWISS-PROT/TrEMBL, PIR-ALN, NCBI Taxonomy Browser) and literature (PubMed, MEDLINE) on-line servers. The computational component in SDAP uses an original algorithm based on conserved properties of amino acid side chains to identify regions of known allergens similar to user-supplied peptides or selected from the SDAP database of IgE epitopes. This and other bioinformatics tools can be used to rapidly determine potential cross-reactivities between allergens and to screen novel proteins for the presence of IgE epitopes they may share with known allergens. SDAP is available via the World Wide Web at http://fermi.utmb.edu/SDAP/.


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