{"cross_mech":[{"cited_uniprot_accession":"","family_mentioned_in_record":true,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF04474","protein_label":"Uncharacterized membrane protein YdfK","reviewed":true,"short_name":"DUF554","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/duf554-pf04474.yaml","source_record_id":"Pfam:PF04474","source_record_label":"Protein of unknown function (DUF554)","source_section":"canonical_examples","taxon_id":"NCBITaxon:224308","taxon_label":"Bacillus subtilis (strain 168)","uniprot_accession":"P96689","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":true,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF04474","protein_label":"Uncharacterized protein YqgA","reviewed":true,"short_name":"DUF554","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/duf554-pf04474.yaml","source_record_id":"Pfam:PF04474","source_record_label":"Protein of unknown function (DUF554)","source_section":"canonical_examples","taxon_id":"NCBITaxon:83333","taxon_label":"Escherichia coli (strain K12)","uniprot_accession":"Q46831","unknown_status":"UNKNOWN_CANDIDATE"},{"cited_uniprot_accession":"","family_mentioned_in_record":null,"link_basis":["trait_identifier"],"pfam_id":"PF04474","protein_label":"","reviewed":null,"short_name":"DUF554","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/duf554-pf04474.yaml","source_record_id":"Pfam:PF04474","source_record_label":"Protein of unknown function (DUF554)","source_section":"trait_identifier","taxon_id":"","taxon_label":"","uniprot_accession":"","unknown_status":"UNKNOWN_CANDIDATE"}],"family":{"alphafold_models":2369,"candidate_reasons":["short_name_matches_duf","name_says_unknown_function"],"characterization_status":"","context_evidence_count":null,"cross_mech":{"example_proteins":2,"protein_traits_record":true,"records_by_mech":{"ProteinTraitsMech":1},"scanned":true},"curation_status":"SEEDED","demotion_reasons":[],"description":"Family of uncharacterised prokaryotic proteins. Multiple predicted transmembrane regions suggest that the region is membrane associated.","domain_architectures":2,"interpro_id":"IPR007563","known_evidence_count":null,"matches":3543,"name":"Protein of unknown function (DUF554)","partial_evidence_count":null,"pfam_id":"PF04474","proteins":3534,"proteomes":3168,"short_name":"DUF554","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF04474","structures":0,"taxa":5319,"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/PF04474.yaml","record":{"characterization_status":"UNSCORED","counters":{"alphafold_models":2369,"domain_architectures":2,"matches":3543,"proteins":3534,"proteomes":3168,"structures":0,"taxa":5319},"curation_status":"SEEDED","description":"Family of uncharacterised prokaryotic proteins. Multiple predicted transmembrane regions suggest that the region is membrane associated.","id":"Pfam:PF04474","interpro_id":"InterPro:IPR007563","name":"Protein of unknown function (DUF554)","pfam_id":"PF04474","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":"DUF554","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF04474"},"source":{"commit":"c8155abfcf881ad8662936343deb81e604e3a194","path":"data/families/PF04474.yaml","repository":"https://github.com/CultureBotAI/DUFMech","sha256":"5f7f43de564cf8c1b45a0307f555259229e6215607f7ab2b61656230204e3fd3"}},"protein_examples":{"candidate_count":2,"discovery_scanned":true,"example_count":2,"examples":[{"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/duf554-pf04474.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF04474","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/family/pfam/duf554-pf04474.yaml"}],"pfam_ids":["PF04474"],"protein_name":"Uncharacterized membrane protein YdfK","registry_status":"NOT_IN_REGISTRY","reviewed":true,"sequence":"MFGTIFNTVMIIAGSIIGGIFKKGIKDEYQDILMQAMGFAAVALGINAITQHLPDSKYPILFIVSLAIGGLLGQIINLELRFNKLVNKFSKSNLAEGLSTAVLLFCIGSLSILGPVEAALHGDYTYLLTNGMLDGITSIVLASTFGFGIAAAALVLFSWQGSIYLFAQVMESAINTDLINEITIVGGILILSSGLSILGIKKFKTLNLLPSLLIPPVVIFVIHAFGLRF","sequence_length":229,"sequence_origin":"UNIPROT_FETCH","sequence_sha256":"ea7fd42532786c9c95e175ec0bbe72f3f7b5c78f517c841b738bfac9a31aea3c","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/P96689.json","taxon_id":"224308","uniprot_accession":"P96689","uniprot_release":"2026_03"},{"evidence_scope":"FAMILY_MEMBERSHIP_NOT_FUNCTION","organism":"Escherichia coli (strain K12)","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/duf554-pf04474.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF04474","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/family/pfam/duf554-pf04474.yaml"}],"pfam_ids":["PF04474"],"protein_name":"Uncharacterized protein YqgA","registry_status":"NOT_IN_REGISTRY","reviewed":true,"sequence":"MVIGPFINASAVLLGGVLGALLSQRLPERIRVSMTSIFGLASLGIGILLVVKCANLPAMVLATLLGALIGEICLLEKGVNTAVAKAQNLFRHSRKKPAHESFIQNYVAIIVLFCASGTGIFGAMNEGMTGDPSILIAKSFLDFFTAMIFACSLGIAVSVISIPLLIIQLTLAWAAALILPLTTPSMMADFSAVGGLLLLATGLRICGIKMFPVVNMLPALLLAMPLSAAWTAWFA","sequence_length":235,"sequence_origin":"UNIPROT_FETCH","sequence_sha256":"d808fcb8ae6c6440f7dab733a9a1e1f693ef23296b587922ae5f8fedcd10a8f5","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/Q46831.json","taxon_id":"83333","uniprot_accession":"Q46831","uniprot_release":"2026_03"}],"pfam_id":"PF04474","short_name":"DUF554","status":"HAS_SEQUENCE_EXAMPLE","unresolved":[]}}