{"cross_mech":[{"cited_uniprot_accession":"","family_mentioned_in_record":false,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF08003","protein_label":"tRNA U34 carboxymethyltransferase","reviewed":true,"short_name":"Methyltransf_9","source_category":"function/protein_family/ncbifam","source_mech":"ProteinTraitsMech","source_path":"data/traits/function/protein_family/ncbifam/trna-5-methoxyuridine-34-uridine-5-oxyacetic-acid-34-synthase-cmob-nf011650.yaml","source_record_id":"NCBIfam:NF011650","source_record_label":"tRNA 5-methoxyuridine(34)/uridine 5-oxyacetic acid(34) synthase CmoB","source_section":"canonical_examples","taxon_id":"NCBITaxon:83333","taxon_label":"Escherichia coli (strain K12)","uniprot_accession":"P76291","unknown_status":"EX_DUF"},{"cited_uniprot_accession":"","family_mentioned_in_record":false,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF08003","protein_label":"tRNA U34 carboxymethyltransferase","reviewed":true,"short_name":"Methyltransf_9","source_category":"function/protein_family/ncbifam","source_mech":"ProteinTraitsMech","source_path":"data/traits/function/protein_family/ncbifam/trna-5-methoxyuridine-34-uridine-5-oxyacetic-acid-34-synthase-cmob-tigr00452.yaml","source_record_id":"NCBIfam:TIGR00452","source_record_label":"tRNA 5-methoxyuridine(34)/uridine 5-oxyacetic acid(34) synthase CmoB","source_section":"canonical_examples","taxon_id":"NCBITaxon:83333","taxon_label":"Escherichia coli (strain K12)","uniprot_accession":"P76291","unknown_status":"EX_DUF"},{"cited_uniprot_accession":"","family_mentioned_in_record":true,"link_basis":["canonical_example_family_classification"],"pfam_id":"PF08003","protein_label":"tRNA U34 carboxymethyltransferase","reviewed":true,"short_name":"Methyltransf_9","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/methyltransf-9-pf08003.yaml","source_record_id":"Pfam:PF08003","source_record_label":"Protein of unknown function (DUF1698)","source_section":"canonical_examples","taxon_id":"NCBITaxon:83333","taxon_label":"Escherichia coli (strain K12)","uniprot_accession":"P76291","unknown_status":"EX_DUF"},{"cited_uniprot_accession":"","family_mentioned_in_record":null,"link_basis":["trait_identifier"],"pfam_id":"PF08003","protein_label":"","reviewed":null,"short_name":"Methyltransf_9","source_category":"sequence/family/pfam","source_mech":"ProteinTraitsMech","source_path":"data/traits/sequence/family/pfam/methyltransf-9-pf08003.yaml","source_record_id":"Pfam:PF08003","source_record_label":"Protein of unknown function (DUF1698)","source_section":"trait_identifier","taxon_id":"","taxon_label":"","uniprot_accession":"","unknown_status":"EX_DUF"}],"family":{"alphafold_models":2183,"candidate_reasons":["name_matches_duf","name_says_unknown_function","pfam_previous_unknown_name"],"characterization_status":"","context_evidence_count":null,"cross_mech":{"example_proteins":1,"protein_traits_record":true,"records_by_mech":{"ProteinTraitsMech":3},"scanned":true},"curation_status":"SEEDED","demotion_reasons":[],"description":"This family contains many hypothetical proteins. It also includes two putative methyltransferase proteins, [swissprot:Q8EEE6] and [swissprot:Q88MX8].","domain_architectures":10,"interpro_id":"IPR027555","known_evidence_count":null,"matches":3420,"name":"Protein of unknown function (DUF1698)","partial_evidence_count":null,"pfam_id":"PF08003","proteins":3413,"proteomes":3257,"short_name":"Methyltransf_9","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF08003","structures":7,"taxa":4980,"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/PF08003.yaml","record":{"characterization_status":"UNSCORED","counters":{"alphafold_models":2183,"domain_architectures":10,"matches":3420,"proteins":3413,"proteomes":3257,"structures":7,"taxa":4980},"curation_status":"SEEDED","description":"This family contains many hypothetical proteins. It also includes two putative methyltransferase proteins, [swissprot:Q8EEE6] and [swissprot:Q88MX8].","id":"Pfam:PF08003","interpro_id":"InterPro:IPR027555","name":"Protein of unknown function (DUF1698)","pfam_id":"PF08003","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":"Methyltransf_9","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF08003"},"source":{"commit":"c8155abfcf881ad8662936343deb81e604e3a194","path":"data/families/PF08003.yaml","repository":"https://github.com/CultureBotAI/DUFMech","sha256":"d73eb4aaafec6e3a22cc20c0508b13d356c268681a2dc4c64fc7f005e4ced64d"}},"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/trna-5-methoxyuridine-34-uridine-5-oxyacetic-acid-34-synthase-cmob-nf011650.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:NF011650","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/trna-5-methoxyuridine-34-uridine-5-oxyacetic-acid-34-synthase-cmob-nf011650.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/trna-5-methoxyuridine-34-uridine-5-oxyacetic-acid-34-synthase-cmob-tigr00452.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:TIGR00452","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/trna-5-methoxyuridine-34-uridine-5-oxyacetic-acid-34-synthase-cmob-tigr00452.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification","ptm_own_pfam_record_example"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/family/pfam/methyltransf-9-pf08003.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF08003","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/family/pfam/methyltransf-9-pf08003.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:P76291","section":"protein_registry","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"}],"pfam_ids":["PF08003"],"protein_name":"tRNA U34 carboxymethyltransferase","registry_source":{"commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","path":"data/grounding/protein_registry.jsonl","repository":"https://github.com/CultureBotAI/proteintraitsmech","sequence_sha256":"9987a2cced4b558627b6e61290bd251f8f3cb05f020ebb00984224546dfe2a7d","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":"MIDFGNFYSLIAKNHLSHWLETLPAQIANWQREQQHGLFKQWSNAVEFLPEIKPYRLDLLHSVTAESEEPLSAGQIKRIETLMRNLMPWRKGPFSLYGVNIDTEWRSDWKWDRVLPHLSDLTGRTILDVGCGSGYHMWRMIGAGAHLAVGIDPTQLFLCQFEAVRKLLGNDQRAHLLPLGIEQLPALKAFDTVFSMGVLYHRRSPLEHLWQLKDQLVNEGELVLETLVIDGDENTVLVPGDRYAQMRNVYFIPSALALKNWLKKCGFVDIRIADVSVTTTEEQRRTEWMVTESLADFLDPHDPGKTVEGYPAPKRAVLIARKP","sequence_length":323,"sequence_origin":"PTM_REGISTRY_MIRROR","sequence_sha256":"9987a2cced4b558627b6e61290bd251f8f3cb05f020ebb00984224546dfe2a7d","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/P76291.json","taxon_id":"83333","uniprot_accession":"P76291","uniprot_release":"2026_03"}],"pfam_id":"PF08003","short_name":"Methyltransf_9","status":"HAS_SEQUENCE_EXAMPLE","unresolved":[]}}