CDART: Protein Homology by Domain Architecture | Zendy

Lewis Y. Geer | Zendy; Michael Domrachev | Zendy; David J. Lipman | Zendy; Stephen H. Bryant | Zendy

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CDART: Protein Homology by Domain Architecture

Author(s) -

Lewis Y. Geer,

Michael Domrachev,

David J. Lipman,

Stephen H. Bryant

Publication year - 2002

Publication title -

genome research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.556

H-Index - 297

eISSN - 1549-5469

pISSN - 1088-9051

DOI - 10.1101/gr.278202

Subject(s) - architecture domain , protein domain , biology , domain (mathematical analysis) , similarity (geometry) , computational biology , homology (biology) , annotation , sequence alignment , architecture , sequence (biology) , protein sequencing , sequence homology , structural classification of proteins database , information retrieval , computer science , protein structure , bioinformatics , genetics , peptide sequence , artificial intelligence , gene , systems architecture , mathematics , art , mathematical analysis , biochemistry , image (mathematics) , enterprise architecture framework , visual arts

The Conserved Domain Architecture Retrieval Tool (CDART) performs similarity searches of the NCBI Entrez Protein Database based on domain architecture, defined as the sequential order of conserved domains in proteins. The algorithm finds protein similarities across significant evolutionary distances using sensitive protein domain profiles rather than by direct sequence similarity. Proteins similar to a query protein are grouped and scored by architecture. Relying on domain profiles allows CDART to be fast, and, because it relies on annotated functional domains, informative. Domain profiles are derived from several collections of domain definitions that include functional annotation. Searches can be further refined by taxonomy and by selecting domains of interest. CDART is available at http://www.ncbi.nlm.nih.gov/Structure/lexington/lexington.cgi.

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