{"cross_mech":[],"family":{"alphafold_models":7643,"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":"This family has been characterised as 3-octaprenyl-4- hydroxybenzoate carboxy-lyase enzymes [[cite:PUB00020511]]. This enzyme catalyses the third reaction in ubiquinone biosynthesis. For optimal activity the carboxy-lase was shown to require Mn2+ [[cite:PUB00020511]]. This entry represents the central RIFT-related domain.","domain_architectures":34,"interpro_id":"IPR048304","known_evidence_count":null,"matches":11748,"name":"3-octaprenyl-4-hydroxybenzoate carboxy-lyase Rift-related domain","partial_evidence_count":null,"pfam_id":"PF01977","proteins":11717,"proteomes":9103,"short_name":"UbiD","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF01977","structures":83,"taxa":13944,"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/PF01977.yaml","record":{"characterization_status":"UNSCORED","counters":{"alphafold_models":7643,"domain_architectures":34,"matches":11748,"proteins":11717,"proteomes":9103,"structures":83,"taxa":13944},"curation_status":"SEEDED","description":"This family has been characterised as 3-octaprenyl-4- hydroxybenzoate carboxy-lyase enzymes [[cite:PUB00020511]]. This enzyme catalyses the third reaction in ubiquinone biosynthesis. For optimal activity the carboxy-lase was shown to require Mn2+ [[cite:PUB00020511]]. This entry represents the central RIFT-related domain.","id":"Pfam:PF01977","interpro_id":"InterPro:IPR048304","name":"3-octaprenyl-4-hydroxybenzoate carboxy-lyase Rift-related domain","pfam_id":"PF01977","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":"UbiD","source_url":"https://www.ebi.ac.uk/interpro/api/entry/pfam/PF01977"},"source":{"commit":"c8155abfcf881ad8662936343deb81e604e3a194","path":"data/families/PF01977.yaml","repository":"https://github.com/CultureBotAI/DUFMech","sha256":"8cb4c209c269a9545a7c65d310f84efa6790edc88c99f6c62be8e450716203fc"}},"protein_examples":{"candidate_count":4,"discovery_scanned":true,"example_count":4,"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/molecular_function/go/4-hydroxy-3-polyprenylbenzoate-decarboxylase-activity-go0008694.yaml","qualification_status":"NOT_ASSESSED","record_id":"GO:0008694","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/molecular_function/go/4-hydroxy-3-polyprenylbenzoate-decarboxylase-activity-go0008694.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/molecular_function/go/prenyl-fmnh2-binding-go0120233.yaml","qualification_status":"NOT_ASSESSED","record_id":"GO:0120233","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/molecular_function/go/prenyl-fmnh2-binding-go0120233.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/4-hydroxy-3-polyprenylbenzoate-decarboxylase-nf008175.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:NF008175","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/4-hydroxy-3-polyprenylbenzoate-decarboxylase-nf008175.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/ubid-family-decarboxylase-tigr00148.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:TIGR00148","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/ubid-family-decarboxylase-tigr00148.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-c-terminal-domain-ipr049381.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR049381","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-c-terminal-domain-ipr049381.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-n-terminal-domain-ipr049383.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR049383","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-n-terminal-domain-ipr049383.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-rift-related-domain-ipr048304.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR048304","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-rift-related-domain-ipr048304.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/pfam/ubid-c-pf20696.yaml","qualification_status":"NOT_ASSESSED","record_id":"Pfam:PF20696","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-c-pf20696.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/pfam/ubid-n-pf20695.yaml","qualification_status":"NOT_ASSESSED","record_id":"Pfam:PF20695","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-n-pf20695.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/ubid-pf01977.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF01977","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-pf01977.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/structure/homologous_superfamily/cath/single-helix-bin-1-20-5-570.yaml","qualification_status":"NOT_ASSESSED","record_id":"CATH:1.20.5.570","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/structure/homologous_superfamily/cath/single-helix-bin-1-20-5-570.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/structure/homologous_superfamily/cath/ubid-c-terminal-domain-like-3-40-1670-10.yaml","qualification_status":"NOT_ASSESSED","record_id":"CATH:3.40.1670.10","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/structure/homologous_superfamily/cath/ubid-c-terminal-domain-like-3-40-1670-10.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:P0AAB4","section":"protein_registry","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"}],"pfam_ids":["PF01977","PF20695","PF20696"],"protein_name":"3-octaprenyl-4-hydroxybenzoate carboxy-lyase","registry_source":{"commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","path":"data/grounding/protein_registry.jsonl","repository":"https://github.com/CultureBotAI/proteintraitsmech","sequence_sha256":"52de5874e60fe83ab2c0bd01c2694c9dfd1850f21c77b23678f4c7ceb3ed233e","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":"MDAMKYNDLRDFLTLLEQQGELKRITLPVDPHLEITEIADRTLRAGGPALLFENPKGYSMPVLCNLFGTPKRVAMGMGQEDVSALREVGKLLAFLKEPEPPKGFRDLFDKLPQFKQVLNMPTKRLRGAPCQQKIVSGDDVDLNRIPIMTCWPEDAAPLITWGLTVTRGPHKERQNLGIYRQQLIGKNKLIMRWLSHRGGALDYQEWCAAHPGERFPVSVALGADPATILGAVTPVPDTLSEYAFAGLLRGTKTEVVKCISNDLEVPASAEIVLEGYIEQGETAPEGPYGDHTGYYNEVDSFPVFTVTHITQREDAIYHSTYTGRPPDEPAVLGVALNEVFVPILQKQFPEIVDFYLPPEGCSYRLAVVTIKKQYAGHAKRVMMGVWSFLRQFMYTKFVIVCDDDVNARDWNDVIWAITTRMDPARDTVLVENTPIDYLDFASPVSGLGSKMGLDATNKWPGETQREWGRPIKKDPDVVAHIDAIWDELAIFNNGKSA","sequence_length":497,"sequence_origin":"PTM_REGISTRY_MIRROR","sequence_sha256":"52de5874e60fe83ab2c0bd01c2694c9dfd1850f21c77b23678f4c7ceb3ed233e","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/P0AAB4.json","taxon_id":"83333","uniprot_accession":"P0AAB4","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"],"mech":"ProteinTraitsMech","path":"data/traits/function/molecular_function/go/4-hydroxy-3-polyprenylbenzoate-decarboxylase-activity-go0008694.yaml","qualification_status":"NOT_ASSESSED","record_id":"GO:0008694","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/molecular_function/go/4-hydroxy-3-polyprenylbenzoate-decarboxylase-activity-go0008694.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/molecular_function/go/4-hydroxybenzoate-decarboxylase-activity-go0018799.yaml","qualification_status":"NOT_ASSESSED","record_id":"GO:0018799","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/molecular_function/go/4-hydroxybenzoate-decarboxylase-activity-go0018799.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/pathway/go/ubiquinone-biosynthetic-process-go0006744.yaml","qualification_status":"NOT_ASSESSED","record_id":"GO:0006744","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/pathway/go/ubiquinone-biosynthetic-process-go0006744.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/non-oxidative-hydroxyarylic-acid-decarboxylases-subunit-c-nf041204.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:NF041204","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/non-oxidative-hydroxyarylic-acid-decarboxylases-subunit-c-nf041204.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/ubid-family-decarboxylase-tigr00148.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:TIGR00148","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/ubid-family-decarboxylase-tigr00148.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-c-terminal-domain-ipr049381.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR049381","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-c-terminal-domain-ipr049381.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-n-terminal-domain-ipr049383.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR049383","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-n-terminal-domain-ipr049383.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-rift-related-domain-ipr048304.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR048304","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-rift-related-domain-ipr048304.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/pfam/ubid-c-pf20696.yaml","qualification_status":"NOT_ASSESSED","record_id":"Pfam:PF20696","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-c-pf20696.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/pfam/ubid-n-pf20695.yaml","qualification_status":"NOT_ASSESSED","record_id":"Pfam:PF20695","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-n-pf20695.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/ubid-pf01977.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF01977","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-pf01977.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/structure/homologous_superfamily/cath/ubid-c-terminal-domain-like-3-40-1670-10.yaml","qualification_status":"NOT_ASSESSED","record_id":"CATH:3.40.1670.10","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/structure/homologous_superfamily/cath/ubid-c-terminal-domain-like-3-40-1670-10.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:P94405","section":"protein_registry","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"}],"pfam_ids":["PF01977","PF20695","PF20696"],"protein_name":"Phenolic acid decarboxylase","registry_source":{"commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","path":"data/grounding/protein_registry.jsonl","repository":"https://github.com/CultureBotAI/proteintraitsmech","sequence_sha256":"e87a99f9824154a6017bf595439031f23263fc42484671c76d299b3b7c8a7cd8","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":"MAYQDFREFLAALEKEGQLLTVNEEVKPEPDLGASARAASNLGDKSPALLFNNIYGYHNARIAMNVIGSWPNHAMMLGMPKDTPVKEQFFEFAKRYDQFPMPVKREETAPFHENEITEDINLFDILPLFRINQGDGGYYLDKACVISRDLEDPDNFGKQNVGIYRMQVKGKDRLGIQPVPQHDIAIHLRQAEERGINLPVTIALGCEPVITTAASTPLLYDQSEYEMAGAIQGEPYRIVKSKLSDLDVPWGAEVVLEGEIIAGEREYEGPFGEFTGHYSGGRSMPIIKIKRVYHRNNPIFEHLYLGMPWTECDYMIGINTCVPLYQQLKEAYPNEIVAVNAMYTHGLIAIVSTKTRYGGFAKAVGMRALTTPHGLGYCKMVIVVDEDVDPFNLPQVMWALSTKMHPKHDAVIIPDLSVLPLDPGSNPSGITHKMILDATTPVAPETRGHYSQPLDSPLTTKEWEQKLMDLMNK","sequence_length":473,"sequence_origin":"PTM_REGISTRY_MIRROR","sequence_sha256":"e87a99f9824154a6017bf595439031f23263fc42484671c76d299b3b7c8a7cd8","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/P94405.json","taxon_id":"224308","uniprot_accession":"P94405","uniprot_release":"2026_03"},{"evidence_scope":"FAMILY_MEMBERSHIP_NOT_FUNCTION","organism":"Saccharomyces cerevisiae (strain ATCC 204508 / S288c)","origins":[{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/pathway/go/cinnamic-acid-catabolic-process-go0046281.yaml","qualification_status":"NOT_ASSESSED","record_id":"GO:0046281","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/pathway/go/cinnamic-acid-catabolic-process-go0046281.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/pathway/go/ferulate-catabolic-process-go1901067.yaml","qualification_status":"NOT_ASSESSED","record_id":"GO:1901067","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/pathway/go/ferulate-catabolic-process-go1901067.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/pathway/go/ferulate-metabolic-process-go0033494.yaml","qualification_status":"NOT_ASSESSED","record_id":"GO:0033494","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/pathway/go/ferulate-metabolic-process-go0033494.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/ubid-family-decarboxylase-tigr00148.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:TIGR00148","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/ubid-family-decarboxylase-tigr00148.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-c-terminal-domain-ipr049381.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR049381","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-c-terminal-domain-ipr049381.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-n-terminal-domain-ipr049383.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR049383","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-n-terminal-domain-ipr049383.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-rift-related-domain-ipr048304.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR048304","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-rift-related-domain-ipr048304.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/pfam/ubid-c-pf20696.yaml","qualification_status":"NOT_ASSESSED","record_id":"Pfam:PF20696","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-c-pf20696.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/pfam/ubid-n-pf20695.yaml","qualification_status":"NOT_ASSESSED","record_id":"Pfam:PF20695","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-n-pf20695.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/ubid-pf01977.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF01977","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-pf01977.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/structure/homologous_superfamily/cath/1-20-5-4570-1-20-5-4570.yaml","qualification_status":"NOT_ASSESSED","record_id":"CATH:1.20.5.4570","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/structure/homologous_superfamily/cath/1-20-5-4570-1-20-5-4570.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/structure/homologous_superfamily/cath/ubid-c-terminal-domain-like-3-40-1670-10.yaml","qualification_status":"NOT_ASSESSED","record_id":"CATH:3.40.1670.10","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/structure/homologous_superfamily/cath/ubid-c-terminal-domain-like-3-40-1670-10.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:Q03034","section":"protein_registry","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/grounding/protein_registry.jsonl"}],"pfam_ids":["PF01977","PF20695","PF20696"],"protein_name":"Ferulic acid decarboxylase 1","registry_source":{"commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","path":"data/grounding/protein_registry.jsonl","repository":"https://github.com/CultureBotAI/proteintraitsmech","sequence_sha256":"f05dbbdc4cf14abe1913b1f6f4344affff5b7686d56f27af7c646665cdd76261","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":"MRKLNPALEFRDFIQVLKDEDDLIEITEEIDPNLEVGAIMRKAYESHLPAPLFKNLKGASKDLFSILGCPAGLRSKEKGDHGRIAHHLGLDPKTTIKEIIDYLLECKEKEPLPPITVPVSSAPCKTHILSEEKIHLQSLPTPYLHVSDGGKYLQTYGMWILQTPDKKWTNWSIARGMVVDDKHITGLVIKPQHIRQIADSWAAIGKANEIPFALCFGVPPAAILVSSMPIPEGVSESDYVGAILGESVPVVKCETNDLMVPATSEMVFEGTLSLTDTHLEGPFGEMHGYVFKSQGHPCPLYTVKAMSYRDNAILPVSNPGLCTDETHTLIGSLVATEAKELAIESGLPILDAFMPYEAQALWLILKVDLKGLQALKTTPEEFCKKVGDIYFRTKVGFIVHEIILVADDIDIFNFKEVIWAYVTRHTPVADQMAFDDVTSFPLAPFVSQSSRSKTMKGGKCVTNCIFRQQYERSFDYITCNFEKGYPKGLVDKVNENWKRYGYK","sequence_length":503,"sequence_origin":"PTM_REGISTRY_MIRROR","sequence_sha256":"f05dbbdc4cf14abe1913b1f6f4344affff5b7686d56f27af7c646665cdd76261","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/Q03034.json","taxon_id":"559292","uniprot_accession":"Q03034","uniprot_release":"2026_03"},{"evidence_scope":"FAMILY_MEMBERSHIP_NOT_FUNCTION","organism":"Methanocaldococcus jannaschii (strain ATCC 43067 / DSM 2661 / JAL-1 / JCM 10045 / NBRC 100440)","origins":[{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/molecular_function/go/carboxy-lyase-activity-go0016831.yaml","qualification_status":"NOT_ASSESSED","record_id":"GO:0016831","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/molecular_function/go/carboxy-lyase-activity-go0016831.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/function/protein_family/ncbifam/ubid-family-decarboxylase-tigr00148.yaml","qualification_status":"NOT_ASSESSED","record_id":"NCBIfam:TIGR00148","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/function/protein_family/ncbifam/ubid-family-decarboxylase-tigr00148.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-c-terminal-domain-ipr049381.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR049381","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-c-terminal-domain-ipr049381.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-rift-related-domain-ipr048304.yaml","qualification_status":"NOT_ASSESSED","record_id":"InterPro:IPR048304","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/interpro/3-octaprenyl-4-hydroxybenzoate-carboxy-lyase-like-rift-related-domain-ipr048304.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/sequence/domain/pfam/ubid-c-pf20696.yaml","qualification_status":"NOT_ASSESSED","record_id":"Pfam:PF20696","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-c-pf20696.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/ubid-pf01977.yaml","qualification_status":"LEGACY_OR_UNSPECIFIED","record_id":"Pfam:PF01977","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/sequence/domain/pfam/ubid-pf01977.yaml"},{"cited_uniprot_accession":"","commit":"70edd6f8458845f7d7783ac4f416df519f5e1de6","link_basis":["canonical_example_family_classification"],"mech":"ProteinTraitsMech","path":"data/traits/structure/homologous_superfamily/cath/ubid-c-terminal-domain-like-3-40-1670-10.yaml","qualification_status":"NOT_ASSESSED","record_id":"CATH:3.40.1670.10","section":"canonical_examples","url":"https://github.com/CultureBotAI/proteintraitsmech/blob/70edd6f8458845f7d7783ac4f416df519f5e1de6/data/traits/structure/homologous_superfamily/cath/ubid-c-terminal-domain-like-3-40-1670-10.yaml"}],"pfam_ids":["PF01977","PF20696"],"protein_name":"Anhydromevalonate phosphate decarboxylase","registry_status":"NOT_IN_REGISTRY","reviewed":true,"sequence":"MREIINKLNPIIIDKADKKFGVSRILKKYDGKPVYIKDVNGFEVVGNLCSRETLSKIFNVKKEDFIFFMLDAMEKEKEGKLKINNKLKEKYIVEIPENIKNWPIPIYYEKDAGAYITSGVVVVYDKDYGYNLSIHRILVKDDYLVIRMVEQRHLHFLYNKALKEKGYLDVAIVIGVHPAVLLAGSTSADITFDELKFAAALLGGEIGVFELDNGLLVPEAEFIIEGKILPEVDDEGPFVDITGTYDIVRKQPIIKIEKLYRKEKPIFHALLPGGIEHKTLMGMPQEPRILKGVRNTVPTVKNIVLTEGGCCWLHAVVQIEKRTEGDGKNAILAAFASHPSLKHVIVVDDDINIFDINDVEYAIATRVQGDKDIVIISGAKGSSLDPSSDLKNKLTAKVGVDATMSLIKGREHFERAKIPDK","sequence_length":421,"sequence_origin":"UNIPROT_FETCH","sequence_sha256":"4019309cdd8224de9da03b8310ab629721a829ee326ad4ebfd7b554b8849df63","sequence_version":1,"source_url":"https://rest.uniprot.org/uniprotkb/Q58533.json","taxon_id":"243232","uniprot_accession":"Q58533","uniprot_release":"2026_03"}],"pfam_id":"PF01977","short_name":"UbiD","status":"HAS_SEQUENCE_EXAMPLE","unresolved":[]}}
