Other seeds' experimental support queried live in QuickGO on 2026-11-05.
| PTN node | node term | n_seeds | leaf IBAs | seed annotation (term, evidence, PMID) | verdict | rationale | other seeds | IBD stands without this seed? |
|---|---|---|---|---|---|---|---|---|
| PTN001253051 | GO:1990281 efflux pump complex | 2 | 87 (21 taxa) | GO:1990281, IDA PMID:19906986/21035449/22187978; IMP PMID:19906986/22187978/23766114 | SOUND | PvdR is the MFP of PvdRT-OpmQ; operon, architecture and identical mutant phenotypes support membership. The PMID:19906986 IDA code is wrong (full text: mutants only) -> PSEUDOCAP WRONG_EVIDENCE_CODE, PROBABLE. | Salmonella MdtA Q8ZNQ3 (IDA PMID:24960027, AgBase) | Yes |
| PTN001253051 | GO:0015562 efflux transmembrane transporter activity | 2 | 86 (21 taxa) | GO:0015562, same six rows | SOUND | Pump exports PVD from the periplasm (mutant accumulation, complementation). Same IDA-code defect. contributes_to would be the more exact qualifier for an MFP, but GO practice uses enables. | MdtA Q8ZNQ3 (IDA PMID:24960027) | Yes |
Node term suits the clade (MdtA-like MFPs of tripartite pumps). No GO_CENTRAL defect.
OpmQ (PA2391) shares the operon but seeds a different node (PTN008411811); its
evidence-code defects are recorded in parallel in opmQ.
Other rows:
- GO:0002049 pyoverdine biosynthetic process IMP (PMID:12686626): INDIRECT-PHENOTYPE
(not a seed). MODIFY to GO:0015891 siderophore transport; PSEUDOCAP WRONG_TERM,
PROBABLE. Same call on opmQ. Contrast pvdD/pvdQ, enzymes for which the same term is
correct.
- GO:1990195 macrolide transmembrane transporter complex and GO:1990961 xenobiotic
detoxification (InterPro IPR030190 MacA alpha-hairpin): REMOVE; the full text
excludes antibiotic export.