parS (PA1798, Q9I2U4) review notes

Review session 2026-11-05 (PseudoCAP IBA-seed protocol, tier 2)

Fetched with just fetch-gene PSEAE Q9I2U4 --alias parS (symbol fetch hit
UniProt rate limits). Accession Q9I2U4 matches the worklist (rank 330).
Unreviewed TrEMBL entry, 428 aa. Checked against the existing review of its
cognate response regulator, genes/PSEAE/parR (same seed paper, same kind of
call). No deep-research provider was used.

Identity

Membrane sensor histidine kinase: Phobius TM helix 133-154, HAMP domain
155-207, histidine kinase domain 215-428 (PROSITE PS50109) with HisKA
(PF00512) and HATPase_c (PF02518); phosphohistidine site His218 (ProRule).
PANTHER PTHR44936:SF10 (RstB-like).
Cognate kinase of ParR (PA1799); parS and parR are adjacent.

Literature

Fernandez et al. 2010 (PMID:20547815; abstract only; the PubMed MCP returns
no full text for PMC2916309): PMID:20547815 PMID:20547815.
The abstract reports genetics and phenotypes, not a kinase or phosphotransfer
assay.
Wang et al. 2013 (PMID:24034668; full text cached): PMID:24034668 parS and parR mutants change the transcriptome in the same way:
PMID:24034668

Clade check (cached PAINT IBD/leaf GAF; QuickGO 2026-11-05)

PTN001293174 (GO:0000155 phosphorelay sensor kinase activity): seeds E. coli
EnvZ P0AEJ4 (EcoCyc IDA PMID:2558046, PMID:2668953), P. aeruginosa PA5484
KinB Q9HT87 (PseudoCAP IDA PMID:9218420) and ParS Q9I2U4 (this gene,
PseudoCAP IMP). 30 leaf IBAs in 13 taxa: EnvZ, RstB, Shewanella PrrB,
Xanthomonas and Bradyrhizobium RegS-type kinases, P. aeruginosa AmgS, BfmS,
GtrS, PA1158, PA5484, plus Vibrio, Fusobacterium, Clostridium,
Rhodopirellula and plant (Ricinus) members. A HisKA/HATPase sensor kinase
clade; the term suits it.
The plasma membrane IBD on the same node is seeded by EnvZ and RstB.

PseudoCAP IBA-seed assessment

PTN node	node term	n_seeds	leaf IBAs	seed annotation (term, evidence, PMID)	verdict	rationale	other seeds	IBD stands without this seed?
PTN001293174	GO:0000155 phosphorelay sensor kinase activity	3	30 (13 taxa)	GO:0000155, IMP, PMID:20547815 (PseudoCAP)	INDIRECT-PHENOTYPE	A molecular function asserted from a mutant phenotype: loss of parS abolishes peptide-induced arn expression and adaptive resistance; no kinase assay is described in the abstract. The term itself is almost certainly right (HisKA/HATPase domains with the conserved His218, cognate RR next door), so the row is kept and only the evidence code is questioned, at SUSPECTED, as for the parR GO:0000156 row.	E. coli EnvZ P0AEJ4 (IDA); P. aeruginosa KinB Q9HT87 (IDA)	Yes. Two seeds with direct kinase assays ground the node; no GO_CENTRAL defect.

Defects filed: PSEUDOCAP WRONG_EVIDENCE_CODE (CHECK, SUSPECTED) on the
GO:0000155 IMP row, mirroring the parR defect from the same paper.

Decisions summary

ACCEPT: phosphorelay sensor kinase activity (IBA, IEA, IMP); phosphorelay
signal transduction system (IEA); plasma membrane (IBA, IEA).
TOO_GENERAL: protein histidine kinase activity, kinase activity, transferase
activity, transferase activity transferring phosphorus-containing groups,
signal transduction, membrane (all IEA; each entailed by an accepted term).