PSEPK phosphatidylglycerol and cardiolipin biosynthesis
- Module seed:
bacterial_phosphatidylglycerol_cardiolipin_biosynthesis - Candidate genes from membership table: 23
- Primary bucket genes: 17
- Existing review files: 11
- Curated review files: 11
- Existing OpenScientist research files: 3
Curated Boundary
This batch extracts one reusable connected module from the broad KEGG
ppu00564 map. Its first coherent part converts CDP-diacylglycerol to
phosphatidylglycerol through PgsA and PgpA. Phosphatidylglycerol is both a valid
module output and the input to the downstream cardiolipin branch.
The cardiolipin part models alternative synthase chemistry as variants:
- ClsA/Q88C19 and ClsB/Q88HT9 use two phosphatidylglycerol molecules.
- PP_5276/Q88CA5 is a PANTHER ClsC-family candidate for the distinct
phosphatidylethanolamine-plus-phosphatidylglycerol reaction; the exact PSEPK
activity remains unresolved and is grounded by characterized E. coli ClsC. - PP_0892/Q88PF8 is a ClsB-like PLD-family candidate retained as a knowledge
gap, not as an established module implementation.
Selected genes: pgsA, pgpA, clsA, clsB, PP_5276, and PP_0892.
Upstream CDP-diacylglycerol formation, phosphatidylethanolamine and
phosphatidylcholine synthesis, lipid remodeling, and lipid turnover are outside
this boundary. No one-step standalone module is introduced.
Required Workflow
- [x] Curate or update the species-neutral module.
- [ ] Run module-level OpenScientist deep research.
- [ ] Run module + pathway + PSEPK OpenScientist deep research.
- [x] Fetch all selected genes with
just fetch-gene PSEPK <gene>. - [ ] Run OpenScientist deep research for selected genes.
- [x] Curate each selected gene review.
- [x] Validate module and gene reviews.
- [ ] Open one PR for this module/pathway.
- [ ] Shepherd PR through review, CI, and merge readiness.
Candidate Genes
| Done | Gene | Locus | UniProt | Primary bucket | Existing review | Curation | OpenScientist research | Protein |
|---|---|---|---|---|---|---|---|---|
| [ ] | PP_0058 |
PP_0058 | Q88RS1 | kegg:ppu00561 | MISSING | MISSING | MISSING | 1-acyl-sn-glycerol-3-phosphate acyltransferase |
| [ ] | plsY |
PP_0391 | Q88QU5 | kegg:ppu00561 | MISSING | MISSING | MISSING | Glycerol-3-phosphate acyltransferase (Acyl-PO4 G3P acyltransferase) (Acyl-phosphate--glycerol-3-phosphate acyltransferas |
| [x] | pgpA |
PP_0520 | Q88QH3 | kegg:ppu00564 | PRESENT | CURATED | MISSING | Phosphatidylglycerophosphatase A (EC 3.1.3.27) (Phosphatidylglycerolphosphate phosphatase A) |
| [ ] | eutC |
PP_0542 | Q88QF2 | kegg:ppu00564 | MISSING | MISSING | MISSING | Ethanolamine ammonia-lyase small subunit (EAL small subunit) (EC 4.3.1.7) |
| [ ] | eutB |
PP_0543 | Q88QF1 | kegg:ppu00564 | MISSING | MISSING | MISSING | Ethanolamine ammonia-lyase large subunit (EAL large subunit) (EC 4.3.1.7) |
| [ ] | pcs |
PP_0731 | Q88PW7 | kegg:ppu00564 | MISSING | MISSING | MISSING | Phosphatidylcholine synthase (EC 2.7.8.24) |
| [x] | PP_0892 |
PP_0892 | Q88PF8 | kegg:ppu00564 | PRESENT | CURATED | MISSING | Phospholipase family protein |
| [x] | glpD |
PP_1073 | Q88NY0 | kegg:ppu00564 | PRESENT | CURATED | PRESENT | Glycerol-3-phosphate dehydrogenase (EC 1.1.5.3) |
| [ ] | plsB |
PP_1520 | Q88MQ0 | kegg:ppu00561 | MISSING | MISSING | MISSING | Glycerol-3-phosphate acyltransferase (GPAT) (EC 2.3.1.15) |
| [ ] | cdsA |
PP_1596 | Q88MH5 | kegg:ppu00564 | MISSING | MISSING | MISSING | Phosphatidate cytidylyltransferase (EC 2.7.7.41) |
| [ ] | dgkA-I |
PP_1636 | Q88MD7 | kegg:ppu00561 | MISSING | MISSING | MISSING | Diacylglycerol kinase (EC 2.7.1.107) |
| [ ] | plsC |
PP_1844 | Q88LT3 | kegg:ppu00561 | MISSING | MISSING | MISSING | 1-acyl-sn-glycerol-3-phosphate acyltransferase (EC 2.3.1.51) |
| [ ] | ugpQ |
PP_2152 | Q88KY7 | kegg:ppu00564 | MISSING | MISSING | MISSING | Glycerophosphoryl diester phosphodiesterase (EC 3.1.4.46) |
| [ ] | dgkA-II |
PP_2973 | Q88IM6 | kegg:ppu00561 | MISSING | MISSING | MISSING | Diacylglycerol kinase (EC 2.7.1.107) |
| [x] | clsB |
PP_3264 | Q88HT9 | kegg:ppu00564 | PRESENT | CURATED | MISSING | Cardiolipin synthase B (CL synthase) (EC 2.7.8.-) |
| [x] | pssA |
PP_3664 | Q88GQ4 | kegg:ppu00564 | PRESENT | CURATED | PRESENT | CDP-diacylglycerol--serine O-phosphatidyltransferase (EC 2.7.8.8) |
| [x] | pgsA |
PP_4097 | Q88FJ8 | kegg:ppu00564 | PRESENT | CURATED | MISSING | CDP-diacylglycerol--glycerol-3-phosphate 3-phosphatidyltransferase (EC 2.7.8.5) |
| [ ] | gpsA |
PP_4169 | Q88FC9 | kegg:ppu00564 | PRESENT | CURATED | MISSING | Glycerol-3-phosphate dehydrogenase [NAD(P)+] (EC 1.1.1.94) (NAD(P)(+)-dependent glycerol-3-phosphate dehydrogenase) (NAD |
| [ ] | PP_4677 |
PP_4677 | Q88DZ1 | kegg:ppu00564 | PRESENT | CURATED | MISSING | CDP-diacylglycerol--serine O-phosphatidyltransferase (EC 2.7.8.8) (Phosphatidylserine synthase) |
| [x] | psd |
PP_4908 | Q88DB9 | kegg:ppu00564 | PRESENT | CURATED | PRESENT | Phosphatidylserine decarboxylase proenzyme (EC 4.1.1.65) [Cleaved into: Phosphatidylserine decarboxylase alpha chain; Ph |
| [ ] | pchP |
PP_5130 | Q88CQ0 | kegg:ppu00564 | MISSING | MISSING | MISSING | Phosphoethanolamine/phosphocholine phosphatase (EC 3.1.3.75) |
| [x] | PP_5276 |
PP_5276 | Q88CA5 | kegg:ppu00564 | PRESENT | CURATED | MISSING | Phospholipase D family protein |
| [x] | clsA |
PP_5364 | Q88C19 | kegg:ppu00564 | PRESENT | CURATED | MISSING | Cardiolipin synthase A (CL synthase) (EC 2.7.8.-) |
Notes
Generated UTC: 2026-08-11T13:22:12.404544+00:00
OpenScientist research was started for all six selected genes, the generic
module, and the PSEPK module-plus-pathway query with 8100-second wrapper and
7200-second provider allowances. Slow jobs are allowed to continue; incomplete
provider output is not substituted with manually authored deep-research files.