Updating the PDB data file

The PDB data is loaded each night from:

pombe-embl/external_data/protein_structure/systematic_id_to_pdbe_mapping.tsv

This file is used:

by the nightly load to populate Chado with PDB IDs which allows the web code to know when to show the PDB structure widget and what PDB IDs area available
by the web site processing code (pombase-chado-json) to add the method and resolution to the PDB table on the web pages (see the pot1 page for an example)

The data file needs to be updated occasionally to get the latest structures.

Steps

use the PDBe Advanced search to search for all PDB entries with genus "Schizosaccharomyces"
example search results
on the results page, use "Select All" in the "Download" dialog
save the results as CSV to: pombe-embl/external_data/protein_structure/pdbe_all_schizosaccharomyces_entries.csv
in the pombe-embl/external_data/protein_structure/ directory run: ./process_pdbe_data_file.py ../../ftp_site/pombe/names_and_identifiers/PomBase2UniProt.tsv pdbe_all_schizosaccharomyces_entries.csv > systematic_id_to_pdbe_mapping.tsv
svn commit pdbe_all_schizosaccharomyces_entries.csv systematic_id_to_pdbe_mapping.tsv

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