SMART 5: domains in the context of genomes and networks

Ivica Letunic; Richard R Copley; Birgit Pils; Stefan Pinkert; Jörg Schultz; Peer Bork

doi:10.1093/nar/gkj079

SMART 5: domains in the context of genomes and networks

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D257-60. doi: 10.1093/nar/gkj079.

Authors

Ivica Letunic¹, Richard R Copley, Birgit Pils, Stefan Pinkert, Jörg Schultz, Peer Bork

Affiliation

¹ EMBL, Meyerhofstrasse 1, 69012 Heidelberg, Germany.

Abstract

The Simple Modular Architecture Research Tool (SMART) is an online resource (http://smart.embl.de/) used for protein domain identification and the analysis of protein domain architectures. Many new features were implemented to make SMART more accessible to scientists from different fields. The new 'Genomic' mode in SMART makes it easy to analyze domain architectures in completely sequenced genomes. Domain annotation has been updated with a detailed taxonomic breakdown and a prediction of the catalytic activity for 50 SMART domains is now available, based on the presence of essential amino acids. Furthermore, intrinsically disordered protein regions can be identified and displayed. The network context is now displayed in the results page for more than 350 000 proteins, enabling easy analyses of domain interactions.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Catalysis
Catalytic Domain
Databases, Protein*
Genomics*
Internet
Models, Biological
Multiprotein Complexes / metabolism
Protein Structure, Tertiary* / genetics
Sequence Alignment
Sequence Analysis, Protein
User-Computer Interface

Substances

Multiprotein Complexes