See: https://github.com/pombase/website/issues/1997#issuecomment-1407365675 Use the PDBe Advanced search to find all Schizosaccharomyces PDB entries: https://www.ebi.ac.uk/pdbe/entry/search/index/?advancedSearch:true On the the results page, include all columns and then download to these files: pombe-embl/supporting_files/pdbe_all_schizosaccharomyces_entries.csv pombe-embl/supporting_files/pdbe_all_schizosaccharomyces_entries.json The data from the PDBe advanced search tool will be written to: pdbe_all_schizosaccharomyces_entries.csv Process the PBDe data file with: # pombe: ./process_pdbe_data_file.py \ ../../ftp_site/pombe/names_and_identifiers/PomBase2UniProt.tsv \ pdbe_all_schizosaccharomyces_entries.csv > systematic_id_to_pdbe_mapping.tsv # japonicus: ./process_pdbe_data_file.py \ /var/www/www-japonicusdb/data/names_and_identifiers/JaponicusDB2UniProt.tsv \ pdbe_all_schizosaccharomyces_entries.csv > systematic_id_to_pdbe_mapping_japonicus.tsv svn commit systematic_id_to_pdbe_mapping.tsv pdbe_all_schizosaccharomyces_entries.csv