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PDBML: the representation of archival macromolecular structure data in XML.

SUMMARY: The Protein Data Bank (PDB) has recently released versions of the PDB Exchange dictionary and the PDB archival data files in XML format collectively named PDBML. The automated generation of these XML files is driven by the data dictionary infrastructure in use at the PDB. The correspondences between the PDB dictionary and the XML schema metadata are described as well as the XML representations of PDB dictionaries and data files.

Pubmed ID: 15509603


  • Westbrook J
  • Ito N
  • Nakamura H
  • Henrick K
  • Berman HM


Bioinformatics (Oxford, England)

Publication Data

April 1, 2005

Associated Grants


Mesh Terms

  • Amino Acid Sequence
  • Database Management Systems
  • Databases, Protein
  • Documentation
  • Information Storage and Retrieval
  • Models, Chemical
  • Molecular Sequence Data
  • Multiprotein Complexes
  • Programming Languages
  • Protein Conformation
  • Proteins