API documentation

General data

• List of all families:

  https://overprot.ncbr.muni.cz/data/db/families.txt

• List of all domains:

  https://overprot.ncbr.muni.cz/data/db/domain_list.json
  https://overprot.ncbr.muni.cz/data/db/domain_list.csv

• Example domains for CATH nodes:

  https://overprot.ncbr.muni.cz/data/db/cath_example_domains.csv

• CATH node names:

  https://overprot.ncbr.muni.cz/data/db/cath_b_names_options.json

• Date of the last update:

  https://overprot.ncbr.muni.cz/data/db/last_update.txt
  https://overprot.ncbr.muni.cz/data/db/last_update_iso.txt

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Family-related data

• Structure consensus for a family:

  https://overprot.ncbr.muni.cz/data/db/family/consensus_cif/consensus-{family_id}.cif

• Secondary structure consensus for a family:

  https://overprot.ncbr.muni.cz/data/db/family/consensus_sses/consensus-{family_id}.sses.json https://overprot.ncbr.muni.cz/data/db/family/consensus_3d/consensus-{family_id}.png

• Input data for OverProt Viewer:

  https://overprot.ncbr.muni.cz/data/db/family/diagram/diagram-{family_id}.json

• Various result files from OverProt:

  https://overprot.ncbr.muni.cz/data/db/family/zip_results/results-{family_id}.zip

• Short summary for a family:

  https://overprot.ncbr.muni.cz/data/db/family/info/family_info-{family_id}.txt

• List of PDB entries for a family:

  https://overprot.ncbr.muni.cz/data/db/family/lists/{family_id}/pdbs.json https://overprot.ncbr.muni.cz/data/db/family/lists/{family_id}/pdbs.csv

• List of domains for a family:

  https://overprot.ncbr.muni.cz/data/db/family/lists/{family_id}/domains.json https://overprot.ncbr.muni.cz/data/db/family/lists/{family_id}/domains.csv

• List of domains included in the consensus computation:

  https://overprot.ncbr.muni.cz/data/db/family/lists/{family_id}/sample.json https://overprot.ncbr.muni.cz/data/db/family/lists/{family_id}/sample.csv

• List of domains for a family, organized by PDB ID:

  https://overprot.ncbr.muni.cz/data/db/family/lists/{family_id}/family.json

• Secondary structure annotation for all domains in a family:

  https://overprot.ncbr.muni.cz/data/db/family/annotation/annotation-{family_id}.zip

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Domain-related data

• General information about a domain:

  https://overprot.ncbr.muni.cz/api/domain/info/{domain_id}.json

• Secondary structure annotation for a domain:

  https://overprot.ncbr.muni.cz/api/domain/annotation/{domain_id}-annotated.sses.json

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Bulk data

• Structure consensus (consensus.cif) for all families:

  https://overprot.ncbr.muni.cz/data/db/bulk/family/consensus_cif.zip

• Secondary structure consensus (consensus.sses.json) for all families:

  https://overprot.ncbr.muni.cz/data/db/bulk/family/consensus_sses.zip

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Remarks

• In all provided data, fields chain_id and ranges refer to the label* numbering scheme (i.e. label_asym_id and label_seq_id in mmCIF).
  Only the fields prefixed by auth_ refer to the auth* numbering scheme (i.e. auth_asym_id, auth_seq_id and pdbx_PDB_ins_code in mmCIF).
• Residue ranges include the start and end residue (e.g. 5:8 means residues 5, 6, 7, 8).
• In the annotation files, the SSEs with labels starting with an underscore _ are unannotated SSEs (they were detected in the structure but not matched to any consensus SSE).