{"cross_mech":[{"cited_uniprot_accession":"","family_mentioned_in_record":true,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF03745","protein_label":"Uncharacterized protein aq_591","reviewed":true,"short_name":"DUF309","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/duf309-pf03745.yaml","source_record_id":"Pfam:PF03745","source_record_label":"Domain of unknown function (DUF309)","source_section":"canonical_examples","taxon_id":"NCBITaxon:224324","taxon_label":"Aquifex aeolicus (strain VF5)","uniprot_accession":"O66853","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":true,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF03745","protein_label":"Uncharacterized protein YpuF","reviewed":true,"short_name":"DUF309","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/duf309-pf03745.yaml","source_record_id":"Pfam:PF03745","source_record_label":"Domain of unknown function (DUF309)","source_section":"canonical_examples","taxon_id":"NCBITaxon:224308","taxon_label":"Bacillus subtilis (strain 168)","uniprot_accession":"P17617","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":null,"link_basis":["trait_identifier"],"pfam_id":"PF03745","protein_label":"","reviewed":null,"short_name":"DUF309","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/duf309-pf03745.yaml","source_record_id":"Pfam:PF03745","source_record_label":"Domain of unknown function (DUF309)","source_section":"trait_identifier","taxon_id":"","taxon_label":"","uniprot_accession":"","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":false,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF03745","protein_label":"Uncharacterized protein YpuF","reviewed":true,"short_name":"DUF309","source_category":"sequence/homologous_superfamily/interpro","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/homologous_superfamily/interpro/ttha0068-like-superfamily-ipr023203.yaml","source_record_id":"InterPro:IPR023203","source_record_label":"TTHA0068-like superfamily","source_section":"canonical_examples","taxon_id":"NCBITaxon:224308","taxon_label":"Bacillus subtilis (strain 168)","uniprot_accession":"P17617","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":false,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF03745","protein_label":"Uncharacterized protein YpuF","reviewed":true,"short_name":"DUF309","source_category":"structure/homologous_superfamily/cath","source_mech":"ProteinTraitsMech","source_path":"data/traits/structure/homologous_superfamily/cath/ttha0068-like-1-10-3450-10.yaml","source_record_id":"CATH:1.10.3450.10","source_record_label":"TTHA0068-like","source_section":"canonical_examples","taxon_id":"NCBITaxon:224308","taxon_label":"Bacillus subtilis (strain 168)","uniprot_accession":"P17617","unknown_status":"UNKNOWN_CANDIDATE"}],"family":{"alphafold_models":3228,"candidate_reasons":["short_name_matches_duf","name_says_unknown_function","description_says_unknown_function","domain_of_unknown_function"],"characterization_status":"","context_evidence_count":null,"cross_mech":{"example_proteins":2,"protein_traits_record":true,"records_by_mech":{"ProteinTraitsMech":3},"scanned":true},"curation_status":"SEEDED","demotion_reasons":[],"description":"This domain is found in eubacterial and archaebacterial proteins of unknown function. The proteins contain a motif HXXXEXX(W/Y) where X can be any amino acid. This motif is likely to be functionally important and may be involved in metal binding.","domain_architectures":16,"interpro_id":"IPR005500","known_evidence_count":null,"matches":4988,"name":"Domain of unknown function (DUF309)","partial_evidence_count":null,"pfam_id":"PF03745","proteins":4982,"proteomes":4259,"short_name":"DUF309","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF03745","structures":3,"taxa":6670,"unknown_status":"UNKNOWN_CANDIDATE"},"inputs":{"cross_mech":"cross-mech-duf-examples-2026-10-10","members":"pfam-uniprot-uniref90-2026-10-07","protein_examples":"duf-protein-examples-2026-10-13","worklist":"interpro-pfam-duf-2026-10-10"},"members":[],"metadata":{"curation_status":"SEEDED","local_source":"source/data/families/PF03745.yaml","record":{"characterization_status":"UNSCORED","counters":{"alphafold_models":3228,"domain_architectures":16,"matches":4988,"proteins":4982,"proteomes":4259,"structures":3,"taxa":6670},"curation_status":"SEEDED","description":"This domain is found in eubacterial and archaebacterial proteins of unknown function. The proteins contain a motif HXXXEXX(W/Y) where X can be any amino acid. This motif is likely to be functionally important and may be involved in metal binding.","id":"Pfam:PF03745","interpro_id":"InterPro:IPR005500","name":"Domain of unknown function (DUF309)","pfam_id":"PF03745","provenance":{"generated_at":"2026-10-10T07:44:21.614711Z","path":"data/worklists/interpro-pfam-duf-2026-10-10.json","sha256":"17fb625876c9326ed284263a47bcd84e0d7844a31c040dc06cd2260c36f1c383","snapshot_id":"interpro-pfam-duf-2026-10-10","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/"},"seed_status":"UNKNOWN_CANDIDATE","short_name":"DUF309","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF03745"},"source":{"commit":"c8155abfcf881ad8662936343deb81e604e3a194","path":"data/families/PF03745.yaml","repository":"https://github.com/CultureBotAI/DUFMech","sha256":"6c1710036179ef7acd64cdb7210068729492805fd824343c3468fe192dc005ed"}},"protein_examples":{"candidate_count":2,"discovery_scanned":true,"example_count":2,"examples":[{"evidence_scope":"FAMILY_MEMBERSHIP_NOT_FUNCTION","organism":"Aquifex aeolicus (strain VF5)","origins":[{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification","ptm_own_pfam_record_example"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/family/pfam/duf309-pf03745.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF03745","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/family/pfam/duf309-pf03745.yaml"}],"pfam_ids":["PF03745"],"protein_name":"Uncharacterized protein aq_591","registry_status":"NOT_IN_REGISTRY","reviewed":true,"sequence":"MLKHLSEKFIYYMAEYFFEFEKRKHYYKLANNLYNSYLKGKKFNRSLLKKVKEDLNLWIDNPNQIQVYSRFLNEVEKEGVKSFGEGLAIIPLINLYREVWRELEEEQNKVEKLREYILKLDSCEICTRGLEGEEFFNCLTQNVDFLTATHIANFFFEEEFLPLNEEIAQILNISKENYFEVIKKLKGANLKNLYGALYVLLQRDSVKVNHVKRLLGISREAELLKEAQYAWNTGDFYRAHEILEEVWGLFKNEEIKKCYRGLIRAAIALHRFKEGNPQSGANVVKQALLDMANCPDNFRGINLGEIRAYLEEVLGTKEIGNPPELKYNIKSEE","sequence_length":333,"sequence_origin":"UNIPROT_FETCH","sequence_sha256":"4aae9df29a5c7891b7e0fe84a07a9f6a40de4f141d72f6094b776224feb0a916","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/O66853.json","taxon_id":"224324","uniprot_accession":"O66853","uniprot_release":"2026_03"},{"evidence_scope":"FAMILY_MEMBERSHIP_NOT_FUNCTION","organism":"Bacillus subtilis (strain 168)","origins":[{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification","ptm_own_pfam_record_example"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/family/pfam/duf309-pf03745.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF03745","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/family/pfam/duf309-pf03745.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/homologous_superfamily/interpro/ttha0068-like-superfamily-ipr023203.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR023203","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/homologous_superfamily/interpro/ttha0068-like-superfamily-ipr023203.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/structure/homologous_superfamily/cath/ttha0068-like-1-10-3450-10.yaml","qualification_status":"NOT_ASSESSED","record_id":"CATH:1.10.3450.10","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/structure/homologous_superfamily/cath/ttha0068-like-1-10-3450-10.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["ptm_registry_exact_uniprot_pfam_xref"],"mech":"ProteinTraitsMech","path":"data/grounding/protein_registry.jsonl","qualification_status":"NOT_ASSESSED_FOR_THIS_FAMILY","record_id":"UniProtKB:P17617","section":"protein_registry","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"}],"pfam_ids":["PF03745"],"protein_name":"Uncharacterized protein YpuF","registry_source":{"commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","path":"data/grounding/protein_registry.jsonl","repository":"https://github.com/CultureBotAI/proteintraitsmech","sequence_sha256":"c44c00fea837640e9067a2e94f242eb003a7428ea2db99e979cf0cf1ed281a2d","sequence_version":1,"sha256":"1be0cf02b76b03a8fe9b80bcead9cd4a419157116eb8da038f266bcc33015eb9","uniprot_release":"2026_03","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"},"registry_status":"EXACT_SEQUENCE_VERSION_MATCH","reviewed":true,"sequence":"MYPKAYIDYLVEFHATRDYFECHEILEEYWKEDPPKKRKRYWVGFIQLAVALYHHRRQNTAGAKRLMANSIRILQAEHRAVEDLGLDHGRLLELMQSVYEQIETVSAYKSIILPIKDEKLEEACRIECRKKKYTWGQPSALSNIFLIDKHRLRDRTDVIREREKEIERRKKSRD","sequence_length":174,"sequence_origin":"PTM_REGISTRY_MIRROR","sequence_sha256":"c44c00fea837640e9067a2e94f242eb003a7428ea2db99e979cf0cf1ed281a2d","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/P17617.json","taxon_id":"224308","uniprot_accession":"P17617","uniprot_release":"2026_03"}],"pfam_id":"PF03745","short_name":"DUF309","status":"HAS_SEQUENCE_EXAMPLE","unresolved":[]}}