Bioinformatics Bioinformatics database can be broadly classified into

Bioinformatics

• Bioinformatics database can be broadly classified into … • 1) Sequence Database • Nucleic acid sequence • Protein sequence • 2) Structure Database • Applicable only for proteins. • Two main functions of biological databases. • 1. To make biological data available in computer. • 2. To make biological data available to researcher & scientists.

• Biological databases are characterized by the type of data… • • 1. Nucleotide sequence (DNA & RNA) Protein sequence motifs Macromolecular 3 D structure Gene Expression data ESTs data Metabolic pathways Images e. g. microarrays, Gel electrophoresis.

• Primary Databases: • Gene Bank • European Molecular Biology Laboratory (EMBL) • DNA Data Bank of Japan (DDBJ) • Secondary Databases: • Most popular…. • SWISS PORT • Deals with… • Protein structure • Function • Family

• Specialized Databases: • Focuses on a particular organism • Taxonomic specific • Flybase • Worm. Base • Ace. DB • TATR

Elementary idea of protein databases Protein Sequence Databases Primary protein sequence databases PIR-PSD (Protein information resource-protein sequence database) • SWISS-PORT • Tr. EMBL • Uni. Port • •

• Secondary amino acid sequence databases • GPCRGB • MHCPep • Clu. STr • COGS

• • Primary Protein Structure databases: PDB (Protein Data Bank) CSD (Cambridge Structural Database Secondary Protein Structure Databases NDB (Nucleic Acid Database) SCOP (Structural Classification of Protein) CATH (Class, Architecture, Topology and Homologous super family)