Gene Identification and Structure

  • Ares Lab Intron Site
    Yeast spliceosomal introns
    Composite regulatory elements
  • CUTG
    Codon usage tables
  • EID
    Protein-coding, intron-containing genes
  • EPD
    Eukaryotic POL II promoters
  • Exint
    Exon-intron structure of eukaryotic genes
    Intron sequence and evolution
    Plant cis-acting regulatory elements
  • PlantCARE
    Plant cis-acting regulatory elements
  • TRRD
    Regulatory regions of eukaryotic genes
  • YIDB
    Yeast nuclear and mitochondrial intron sequences

    Intermolecular Interactions

  • DIP
    Catalog of protein-protein interactions
  • DPInteract
    Binding sites for E. coli DNA-binding proteins

    Mutation Databases

  • Mutation Spectra Database
    Mutations in viral, bacterial, yeast, and mammalian genes
  • PMD
    Compilation of protein mutant data

    Protein Sequence Motifs

    Protein sequence motifs and alignments
    Biologically-significant protein patterns and profiles
    Glycoproteins and O-linked glycosylation sites
  • ProDom
    Protein domain families

    Molecular Biology Servers

  • ExPASy
    Molecular Biology server of the Swiss Institute of Bioinformatics dedicated to the analysis of proteins
  • CMS Molecular Biology Resource
    A compendium of electronic and internet accessible tools and resources for molecular biology, biotechnology, molecular evolution, biochemistry, and bio- molecular modeling.
  • Molecular Microbiology Jump Station
    Collection of links and information on all aspects of microbiology.

    Metabolic Pathways and Cellular Regulation

  • Kyoto Encycl. Of Genes and Genomes (KEGG)
    Metabolic and regulatory pathways
  • EcoCy
    E.coli K-12 genome, gene products, and metabolic pathways
    Enzyme nomenclature
  • Klotho
    Collection and categorization of biological compounds
    Enzymatic ligands, substrates, and reactions
  • RegulonDB
    E.coli pathways and regulation
  • UM-BBD
    Microbial biocatalytic reactions and biodegradation pathways
  • WIT2
    System for functional curation and development of metabolic models


    Analysis of protein structures and their sequences
  • BioMagResBank
    NMR spectroscopic data from proteins, peptides, and nucleic acids
  • IMB Jena Image Library
    Visualization and analysis of three-dimensional bipolymer structure
  • LPFC
    Library of protein family core structures
  • Protein Motions Database
    Motions of protein loops, domains, and subunits