Graph URIs

• http://bmrbpub.pdbj.org/rdf/bmr (for BMRB entries)
• http://bmrbpub.pdbj.org/rdf/bms (for Metabolomics entries)
• http://rdf.wwpdb.org/pdb (for PDB entries)
• http://rdf.wwpdb.org/cc (for chem_comp entries)
• http://rdf.wwpdb.org/prd (for BIRD_PRD entries)
• http://rdf.wwpdb.org/fam (for BIRD_FAM entries)

Prefixes

• rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
• rdfs: <http://www.w3.org/2000/01/rdf-schema#>
• owl: <http://www.w3.org/2002/07/owl#>

Reference Ontorogies

• BMRB/OWL: BMRB/RDF ontology
• PDB/OWL: PDB/RDF ontology
• VRPT/OWL: VRPT/RDF ontology

How to run SPARQL query via curl command. Please include FROM clause in a query to select Graph URI.

% curl -F "query=QUERY" -F "format=FORMAT" https://bmrbpub.pdbj.org/search/rdf

% curl -F "query=@QFILE" -F "format=FORMAT" https://bmrbpub.pdbj.org/search/rdf

, where QUERY and QFILE stand for actual query strings and query file name, respectively. FORMAT represents MIME type selected from either text/html, application/vnd.ms-excel, application/results-xml, application/results-json, text/plane, application/rdf+xml, text/csv or text/tab-separated-values.

Database names are "bmr" for BMRB and "bms" for Metabolomics, respectively.