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Table 1 Data sources integrated in COLUMBA.

From: Columba: an integrated database of proteins, structures, and annotations

Source download page format Parsed by
PDB http://www.rcsb.org/pdb flat file BioPython
SCOP http://scop.berkeley.edu flat file BioPython
CATH http://www.biochem.ucl.ac.uk/bsm/cath flat file own
DSSP computed - own
ENYZME http://us.expasy.org/enzyme flat file BioPython
Boehringer http://us.expasy.org/tools/pathways HTML own
KEGG http://www.genome.jp/kegg HTML own
Swiss-Prot http://www.expasy.org/sprot flat file bioSQL
GO http://www.geneontology.org flat file bioSQL
GOA http://www.ebi.ac.uk/GOA DB dump COPY
Taxonomy http://www.ncbi.nlm.nih.gov/Taxonomy flat file bioSQL
PISCES http://dunbrack.fccc.edu/PISCES.php DB dump own
  1. The forth column gives the parsers used.