Molecular Databases

Sequences and/or Structures of Biological Macromolecules

• BioMagResBank: Home Page. A Repository for Data from NMR Spectroscopy on Proteins, Peptides and Nucleic Acids.
• BMCD: Home Page. Biological Macromolecule Crystallization Database and the NASA Archive for Protein Crystal Growth Data.
• Entrez: Nucleotides, Proteins, 3D-Structures, Genomes, Taxonomy, Literature. The Entrez Browser is provided by the National Center for Biotechnology Information: NCBI.
• GenBank: NIH genetic sequence database, an annoted collection of all publicly avaible DNA sequences. Nucleic Acids Research 1998, Jan 1, 26(1): 1-7.
• MMDB: The Molecular Modelling Database contains 3-D macromolecular structures, including proteins and polynucleotides. NCBI.
• NDB: The Nucleic Acid Database archives contain coordinate files, prepared reports, nucleic acid dictionaries, and other resources. Rutges, the State University of New Jersey.
• OWL: Search the OWL Database. The OWL database is a non-redundant protein sequence database produced from SWISSPROT, PIR(1-3), Genbank translations and NRL-3D.
• PDBsum: BSM PDB Data. Summaries & Structural Analyses of PDB Data Files: CATH, FSSP, PROCHECK, PROMOTIF, SCOP, WHATIF, etc.
• PDB at Brookhaven National Laboratories: PDB Home Page.
• RNABase: Home Page. The RNA Structure Database.
• SWISS-PROT: Prot Top Page. ExPasy-Swiss Protein Sequence Database.
  Swiss-PdbViewer Home Page. Geneva Biomedical Research Institute.

Genome Databases

• FlyBase: A Database of the Drosophila genome.
• GDB: A Database of human genome.
• Sacch3D: Yeast Structure Database. Sacch3D, an extension of the Saccharomyces Genome Database, presents structural information for every protein in the yeast genome.

Specific Data Banks

• ABG: Directory of 3D structures of antibodies. Home Page.
• DDBase: A database of protein structural domains. R. Sowdhamlnl, S.D.Rufino & T.L. Blundell. Home Page.
• 3-Dee: Database of Protein Domain Definitions. The database contains definitions of strucutral domains for all protein chains in the Brookhaven Protein Databank that have 20 or more residues and are not theorical models.
• Enzyme Structures Database: Home Page. This database contains the known enzyme structures that have been deposited in the Brookhaven Protein Data Bank (the PDB).
• IMB Jena Image Library of Biological Macromolecules: General Information.
• LGIC: The Ligand Gated Ion Channel Database contains nucleic and proteic sequences of Ligand gated ion channel subunits. Atomic coordinates are provided when available.
• LIGAND: Ligand Database. GenomeNet, Institute for Chemical Research, Kyoto University, Japan.
• PRINTS: Protein Motif Fingerprint Database. A database of protein motif fingerprints, and its comparison compendium of sequence alignments. T.K. Attwood & M.E. Beck (1994)
• PROSITE: Database of Protein Families and Domains. PROSITE.
• Pseudobase: PKB A collection of RNA pseudoknots. F.H.D. van Batenburg et al. (Leiden University)
• MolMovDB: Database of Macromolecular Movements with associated tool for Geometric Analysis.

Other Organic and Inorganic Compounds

• Klotho: Biochemical Compounds Declarative Database.
• CSD: The Cambridge Structural Database.
• X-Ray WWW Server: Department of Physics, Uppsala University (Sweden).
• Heavy-atom Databank: Home Page.

Collections of Databases

• Crystallography Databases: Databases.
• Databases: International Union of Crystallography; Commision for Powder Diffraction.
• Prot-Web: The Genome Database. John Hopkins University BioInformatics Web Server.

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