{"cross_mech":[],"family":{"alphafold_models":14574,"candidate_reasons":["pfam_previous_unknown_name"],"characterization_status":"","context_evidence_count":null,"cross_mech":{"example_proteins":0,"protein_traits_record":false,"records_by_mech":{},"scanned":false},"curation_status":"SEEDED","demotion_reasons":[],"description":"Members of this family act as antitoxins in type II toxin-antitoxin systems [[cite:PUB00015218]]. When bound to their toxin partners, they can bind DNA via the N-terminus and repress the expression of operons containing genes encoding the toxin and the antitoxin [[cite:PUB00054755]]. This domain complexes with Txe toxins containing [pfam:PF06769], Fic/DOC toxins containing [pfam:PF02661] and YafO toxins containing [pfam:PF13957].","domain_architectures":33,"interpro_id":"IPR006442","known_evidence_count":null,"matches":22715,"name":"Antitoxin Phd_YefM, type II toxin-antitoxin system","partial_evidence_count":null,"pfam_id":"PF02604","proteins":22715,"proteomes":9546,"short_name":"PhdYeFM_antitox","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF02604","structures":24,"taxa":14306,"unknown_status":"EX_DUF"},"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/PF02604.yaml","record":{"characterization_status":"UNSCORED","counters":{"alphafold_models":14574,"domain_architectures":33,"matches":22715,"proteins":22715,"proteomes":9546,"structures":24,"taxa":14306},"curation_status":"SEEDED","description":"Members of this family act as antitoxins in type II toxin-antitoxin systems [[cite:PUB00015218]]. When bound to their toxin partners, they can bind DNA via the N-terminus and repress the expression of operons containing genes encoding the toxin and the antitoxin [[cite:PUB00054755]]. This domain complexes with Txe toxins containing [pfam:PF06769], Fic/DOC toxins containing [pfam:PF02661] and YafO toxins containing [pfam:PF13957].","id":"Pfam:PF02604","interpro_id":"InterPro:IPR006442","name":"Antitoxin Phd_YefM, type II toxin-antitoxin system","pfam_id":"PF02604","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":"EX_DUF","short_name":"PhdYeFM_antitox","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF02604"},"source":{"commit":"c8155abfcf881ad8662936343deb81e604e3a194","path":"data/families/PF02604.yaml","repository":"https://github.com/CultureBotAI/DUFMech","sha256":"f5aeb5d07f89d0091c536457b664ac863efddd4dc675d4f8f9d26158cdf55124"}},"protein_examples":{"candidate_count":1,"discovery_scanned":true,"example_count":1,"examples":[{"evidence_scope":"FAMILY_MEMBERSHIP_NOT_FUNCTION","organism":"Escherichia coli (strain K12)","origins":[{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/type-ii-toxin-antitoxin-system-prevent-host-death-family-antitoxin-tigr01552.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:TIGR01552","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/type-ii-toxin-antitoxin-system-prevent-host-death-family-antitoxin-tigr01552.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/yoeb-yefm-toxin-antitoxin-system-antitoxin-yefm-nf008499.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:NF008499","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/yoeb-yefm-toxin-antitoxin-system-antitoxin-yefm-nf008499.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification","ptm_own_pfam_record_example"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/pfam/phdyefm-antitox-pf02604.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF02604","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/phdyefm-antitox-pf02604.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/homologous_superfamily/interpro/yefm-like-superfamily-ipr036165.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR036165","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/homologous_superfamily/interpro/yefm-like-superfamily-ipr036165.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/structure/homologous_superfamily/cath/6-10-250-330-6-10-250-330.yaml","qualification_status":"NOT_ASSESSED","record_id":"CATH:6.10.250.330","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/structure/homologous_superfamily/cath/6-10-250-330-6-10-250-330.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/structure/homologous_superfamily/cath/yefm-like-domain-3-40-1620-10.yaml","qualification_status":"NOT_ASSESSED","record_id":"CATH:3.40.1620.10","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/structure/homologous_superfamily/cath/yefm-like-domain-3-40-1620-10.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:P69346","section":"protein_registry","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"}],"pfam_ids":["PF02604"],"protein_name":"Antitoxin YefM","registry_source":{"commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","path":"data/grounding/protein_registry.jsonl","repository":"https://github.com/CultureBotAI/proteintraitsmech","sequence_sha256":"da38fdabe39eceed1948677ba425a78aa37e1ece73d65528c4c220addbc4034d","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":"MRTISYSEARQNLSATMMKAVEDHAPILITRQNGEACVLMSLEEYNSLEETAYLLRSPANARRLMDSIDSLKSGKGTEKDIIE","sequence_length":83,"sequence_origin":"PTM_REGISTRY_MIRROR","sequence_sha256":"da38fdabe39eceed1948677ba425a78aa37e1ece73d65528c4c220addbc4034d","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/P69346.json","taxon_id":"83333","uniprot_accession":"P69346","uniprot_release":"2026_03"}],"pfam_id":"PF02604","short_name":"PhdYeFM_antitox","status":"HAS_SEQUENCE_EXAMPLE","unresolved":[]}}