Table 1 Data sources integrated in COLUMBA.

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