# Curated Pfam entry review (entry-centric; see src/ai_gene_review/schema/pfam_entry_review.yaml).
# Sidecar to the machine-fetched PF09043-metadata.yaml (do not hand-edit metadata).
# Hand-curated; examples/counter-examples verified against UniProt (reviewed entries).
pfam_id: PF09043
pfam_name: Lys-AminoMut_A
pfam_description: Alpha-subunit TIM-barrel domain of D-lysine 5,6-aminomutase (adenosylcobalamin-dependent).
interpro:
  id: InterPro:IPR015130
  label: Lys-AminoMut_A
  type: Domain
  member_pfams:
  - id: Pfam:PF09043
    label: Lys-AminoMut_A
    is_subject: true
    note: D-lysine 5,6-aminomutase alpha subunit
  - id: Pfam:PF16552
    label: OAM_alpha
    note: D-ornithine 4,5-aminomutase alpha subunit (a distinct aminomutase)
  go_status: ABSENT
  mapping_viability: NOT_VIABLE
  viability_reason: >-
    The entry groups two distinct adenosylcobalamin-dependent aminomutase alpha subunits
    (D-lysine 5,6 vs D-ornithine 4,5), so neither specific activity fits the whole entry.
proposed_annotations:
- term:
    id: GO:0047826
    label: D-lysine 5,6-aminomutase activity
  relation:
    id: RO:0002327
    label: enables
  aspect: molecular_function
  confidence: MEDIUM
  status: PROPOSED
  rationale: >-
    Reviewed members are the alpha subunit of D-lysine/beta-lysine 5,6-aminomutase
    (KamD; EC 5.4.3.3/5.4.3.4). MEDIUM rather than HIGH because the small family and its
    sibling (OAM_alpha) share the cobalamin-mutase architecture and subunit assignments
    are easy to confuse across the alpha/beta components.
  supporting_examples:
  - accession: UniProt:E3PRJ5
    protein_name: KAMD_ACESD (lysine 5,6-aminomutase alpha subunit)
    organism: Acetoanaerobium sticklandii
    ec: 5.4.3.3
    reviewed: true
  - accession: UniProt:Q8RHX7
    protein_name: KAMD_FUSNN (lysine 5,6-aminomutase alpha subunit)
    organism: Fusobacterium nucleatum
    ec: 5.4.3.3
    reviewed: true
  counter_examples:
  - accession: UniProt:E3PY96
    protein_name: OAMS_ACESD (D-ornithine 4,5-aminomutase subunit alpha)
    organism: Acetoanaerobium sticklandii
    member_pfam: Pfam:PF16552
    ec: 5.4.3.5
    reviewed: true
    reason: Sibling family with a different aminomutase activity (D-ornithine 4,5); an entry-level D-lysine term would mis-annotate it.
notes: >-
  PF09043 and its sibling PF16552 are mutual counter-examples: two specialized
  aminomutases sharing the IPR015130 domain.