Gene3D: Structural Assignment for Whole Genes and Genomes Using the CATH Domain Structure Database
AUTOR(ES)
Buchan, Daniel W.A.
FONTE
Cold Spring Harbor Laboratory Press
RESUMO
We present a novel web-based resource, Gene3D, of precalculated structural assignments to gene sequences and whole genomes. This resource assigns structural domains from the CATH database to whole genes and links these to their curated functional and structural annotations within the CATH domain structure database, the functional Dictionary of Homologous Superfamilies (DHS) and PDBsum. Currently Gene3D provides annotation for 36 complete genomes (two eukaryotes, six archaea, and 28 bacteria). On average, between 30% and 40% of the genes of a given genome can be structurally annotated. Matches to structural domains are found using the profile-based method (PSI-BLAST). and a novel protocol, DRange, is used to resolve conflicts in matches involving different homologous superfamilies.
ACESSO AO ARTIGO
http://www.pubmedcentral.nih.gov/articlerender.fcgi?artid=155287Documentos Relacionados
- The CATH Domain Structure Database and related resources Gene3D and DHS provide comprehensive domain family information for genome analysis
- Gene3D: structural assignments for the biologist and bioinformaticist alike
- A rapid classification protocol for the CATH Domain Database to support structural genomics
- The CATH database: an extended protein family resource for structural and functional genomics
- 3D-GENOMICS: a database to compare structural and functional annotations of proteins between sequenced genomes