rimO (P0AEI4) notes

Deep research was unavailable for this gene (falcon returned 403; asta returned nothing useful in
Phase 1 of the RADICAL_SAM project). The review was built from cached primary papers, the UniProt
record and QuickGO term lookups.

Function

• yliG/rimO is required for beta-methylthiolation of uS12 Asp88: PMID:18252828. Predicted unique among MTTase subgroups in modifying protein PMID:18252828.
• In vitro: PMID:19736993; two [4Fe-4S] clusters after reconstitution; SAM cleaved to 5'-dA
  PMID:19736993. SAH formed
  only substoichiometrically, so the methyl source was not proven in that paper; the RHEA reaction
  (RHEA:37087) uses 2 SAM by analogy with MiaB.
• In vivo context: PMID:21169565; YcaO needed for efficient modification.
• Family mechanism and T. maritima RimO structure with SAM: PMID:23542644.

Term decisions

• Protein methylthiolation MF: GO:0103039 protein methylthiotransferase activity (QuickGO: defined as
  the RHEA:37087 uS12 Asp89 reaction; is_a GO:0140096 catalytic activity, acting on a protein, and
  GO:0035596). GO:0035599 aspartic acid methylthiotransferase activity (peptidyl-Asp beta-carbon) is a
  sibling under GO:0035596, not a parent. Both ACCEPTed; core MF = GO:0103039 (RHEA-defined, parallel
  to GO:0035597 for MiaB). Ontology question raised in suggested_questions.
• BP: GO:0018339 (peptidyl-L-beta-methylthioaspartic acid biosynthesis) and GO:0018197
  (peptidyl-aspartic acid modification) are OBSOLETE in QuickGO ("specific pathway variant, out of
  scope"). No BP asserted for RimO.
• GO:0006400 tRNA modification (IEA, InterPro IPR005839 family-wide mapping) REMOVED: RimO modifies
  protein, not tRNA PMID:19736993.
• GO:0003824 -> GO:0103039; GO:0016740 and GO:0035596 -> GO:0103039 + GO:0035599; GO:0051536 ->
  GO:0051539; GO:0005737 -> GO:0005829. NEW GO:1904047 (IDA PMID:19736993).