SMART 5: domains in the context of genomes and networks

SMART 5: domains in the context of genomes and networks

Received September 13, 2005; Revised and Accepted October 11, 2005 | Ivica Letunic, Richard R. Copley1, Birgit Pils2, Stefan Pinkert2, Jörg Schultz2 and Peer Bork*
The Simple Modular Architecture Research Tool (SMART) is an online resource for protein domain identification and analysis. New features have been implemented to enhance its accessibility and utility, particularly for genomic studies. The 'Genomic' mode simplifies the analysis of domain architectures in completely sequenced genomes by using a minimal redundancy database. The tool now includes detailed taxonomic breakdowns and predictions of catalytic activity for 50 SMART domains, based on the presence of essential amino acids. Intrinsically disordered protein regions can also be identified and displayed. Over 35,000 proteins now have network context displayed on the results page, facilitating the study of domain interactions. Additionally, SMART integrates protein interaction data from the STRING database, providing information on putative interaction partners for these proteins. The user interface has been updated to comply with modern web standards, and the database has been optimized for faster response times. These improvements make SMART an invaluable tool for systems biologists and researchers in various fields.The Simple Modular Architecture Research Tool (SMART) is an online resource for protein domain identification and analysis. New features have been implemented to enhance its accessibility and utility, particularly for genomic studies. The 'Genomic' mode simplifies the analysis of domain architectures in completely sequenced genomes by using a minimal redundancy database. The tool now includes detailed taxonomic breakdowns and predictions of catalytic activity for 50 SMART domains, based on the presence of essential amino acids. Intrinsically disordered protein regions can also be identified and displayed. Over 35,000 proteins now have network context displayed on the results page, facilitating the study of domain interactions. Additionally, SMART integrates protein interaction data from the STRING database, providing information on putative interaction partners for these proteins. The user interface has been updated to comply with modern web standards, and the database has been optimized for faster response times. These improvements make SMART an invaluable tool for systems biologists and researchers in various fields.
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Understanding SMART 5%3A domains in the context of genomes and networks