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SMART: identification and annotation of domains from signalling and extracellular protein sequences

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Item Type:Article
Title:SMART: identification and annotation of domains from signalling and extracellular protein sequences
Creators Name:Ponting, C.P. and Schultz, J. and Milpetz, F. and Bork, P.
Abstract:SMART is a simple modular architecture research tool and database that provides domain identification and annotation on the WWW (http://coot.embl-heidelberg.de/SMART). The tool compares query sequences with its databases of domain sequences and multiple alignments whilst concurrently identifying compositionally biased regions such as signal peptide, transmembrane and coiled coil segments. Annotated and unannotated regions of the sequence can be used as queries in searches of sequence databases. The SMART alignment collection represents more than 250 signalling and extracellular domains. Each alignment is curated to assign appropriate domain boundaries and to ensure its quality. In addition, each domain is annotated extensively with respect to cellular localisation, species distribution, functional class, tertiary structure and functionally important residues.
Keywords:Amino Acid Sequence, Factual Databases, Information Storage and Retrieval, Membrane Proteins, Protein Sorting Signals, Tertiary Protein Structure, Proteins, Sequence Alignment, Amino Acid Sequence Homology, Signal Transduction, User-Computer Interface
Source:Nucleic Acids Research
Publisher:Oxford University Press
Page Range:229-232
Date:1 January 1999
Official Publication:http://nar.oxfordjournals.org/cgi/content/abstract/27/1/229
PubMed:View item in PubMed

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