ubiD (PP_5213, Q88CG8) - Pseudomonas putida KT2440 - curation notes

2026-11-11 audit (ubiquinone_biosynthesis module)

No Perplexity/Falcon/OpenAI deep research available (no provider keys); OpenScientist report
read critically. Evidence: reviewed UniProt entry (HAMAP MF_01636) and E. coli/yeast UbiD-UbiX
literature. No KT2440 experiment.

• Two-component system: PMID:25647642
• E. coli genetics: PMID:17889824
• Not in the Ubi metabolon: PMID:30686758 - the
  seven are UbiE/F/G/H/I/J/K. The OpenScientist report's statement that UbiD works within the
  soluble metabolon is unsupported (reference_review LOW_QUALITY).
• PAINT PTHR30108: root PTN000764648 GO:0005737, GO:0016831; bacterial UbiD node PTN000764659
  GO:0005829, GO:0008694, GO:0006744 (seed E. coli P0AAB4).
• Decisions: GO:0008694, GO:0006744, GO:0005886 ACCEPT; GO:0016831 MODIFY to GO:0008694;
  cytoplasm MODIFY to cytosol; cytosol KEEP_AS_NON_CORE (peripheral-membrane enzyme with a
  plausible soluble pool).

Module agreement: polyprenyl_hydroxybenzoate_decarboxylase_activity (GO:0008694); module
gives no location, review uses plasma membrane (HAMAP).