Database Information

• http://www.genome.ad.jp/dbget/

• AAINDEX_1 - Amino Acid Indices
• AAINDEX_2 - Amino Acid Mutation Matrices

BLOCKS - Multiple alignments of conserved regions of protein families

• http://www.blocks.fhcrc.org

DBCAT - DBCat Public Catalog of Databases

• http://www.infobiogen.fr/services/dbcat/

DOGS - Database of Genome Sizes

• http://www.cbs.dtu.dk/databases/DOGS/

ECDC - E.Coli Database Collection

• http://susi.bio.uni-giessen.de/ecdc/ecdc.html

ENZYME - Repository of information relative to the nomenclature of enzymes

• http://www.expasy.ch/enzyme/

EPD - Eukaryotic Promoter Database

• http://www.epd.isb-sib.ch/

FlyBase - A comprehensive database for information on the genetics and molecular biology of Drosophila

• http://flybase.bio.indiana.edu:82/

GenBank

• http://www.ncbi.nlm.nih.gov/Genbank/index.html

• All
• Bacterial sequences
• Expressed sequence tags
• Genome survey sequence entries
• High throughput genomic sequencing entries
• Invertebrate sequences
• Mammalian sequences
• Updates
• Patent sequences
• Phage sequences
• Plant sequences (incl. fungi and algae)
• Primate sequences
• Rodent sequences
• Sequence tagged site entries
• Synthetic and chimeric sequences
• Unannotated sequence entries
• Viral sequences
• Misc. vertebrate sequences
• Gene products database

IMGT - ImMunoGeneTics

• http://www.ebi.ac.uk/imgt/

KEGG

• http://www.genome.ad.jp/kegg/

• Genes database
• Pathway database

Ligand

• http://www.genome.ad.jp/dbget/ligand.html

• Compound database
• Enzyme database

MHC binding peptides

• http://wehih.wehi.edu.au/mhcpep/

NRL 3-D - Sequence-structure database derived from the 3-dimensional structure of proteins deposited with the Brookhaven National Labratory's Protein Data Bank

• http://www-nbrf.georgetown.edu/pirwww/search/textnrl3d.html

OMIM - Online Mendelian Inheritance in Man

• http://www.ncbi.nlm.nih.gov/Omim/

PDBFINDER - Sequences derived from the PDB, DSSP, and HSSP databases

• http://www.biochemtech.uni-halle.de/info_protein/overview.html/

PIR - Protein Information Resource

• http://www.psc.edu/general/software/packages/nbrf-pir/nbrf.html

• PIR1 - Fully classified entries
• PIR2 - Verified and classified entries
• PIR3 - Unverified entries
• PIR4 - Unencoded or untranslated entries

PRINTS - Protein Motif Fingerprint Database

• http://www.biochem.ucl.ac.uk/bsm/dbbrowser/PRINTS/PRINTS.html

PRODOM - The Protein Domain Database

• http://protein.toulouse.inra.fr/prodom.html

PROSITE

• http://www.expasy.ch/prosite/

• PROSITE_DOC

REBASE - Restriction Enzyme Database

• http://rebase.neb.com/rebase/rebase.html

SDSCNR - Non-Redundant sequence database made from all protein databases within the Biology Workbench

SEQANAL - Sequence Analysis Bibliographic Reference Data Bank

• http://www.expasy.ch/seqanalref/

SWISSPROT

• http://www.expasy.ch/sprot/

• SWISSnew - Updates

TRANSFAC - Transcription Factor Database

• http://transfac.gbf-braunschweig.de/TRANSFAC/index.html

• TRANSFAC_CELL - Explanaitons of cellular sources that interact with sites in Transfac SITE
• TRANSFAC_CLASS - Explanations of DNA binding domains of transcription factor classes
• TRANSFAC_FACTOR - Tukaryotic cis-acting regulatory DNA elements and trans-acting factors
• TRANSFAC_GENE
• TRANSFAC_SITE - Putative regulatory protein binding sites

TrEMBL

• http://www.expasy.ch/sprot/sprot-top.html

• TrEMBLnew - Updates