PA4843 / GcbA (AdcA) (Q9HUW7) review notes

Unreviewed UniProt entry with no gene name; folder and gene_symbol use the locus
tag. Literature names: GcbA (Petrova et al. 2014) and AdcA, AmrZ-dependent
cyclase A (Jones et al. 2014). 542 aa: two receiver domains (125-242, 251-367)
and a GGEEF domain (407-539), a PleD-like architecture. UniProt CAUTION: one
receiver lacks conserved residues (PROSITE-ProRule PRU00169). No TRANSMEM feature,
and a Kyte-Doolittle scan (19-residue window, mean above 1.6, run in this session)
finds no hydrophobic window, so it is predicted soluble. The UniProt "Cell inner
membrane" location rests on an ARBA rule only.

Literature (no deep-research provider available; own reading)

Jones et al. 2014 (PMID:24603766; full text cached). AmrZ directly represses
PA4843 (adcA). Expression of PA4843 raises c-di-GMP about 30-fold
PMID:24603766; deleting adcA in a amrZ mutant restores wild-type
c-di-GMP and removes the hyperbiofilm phenotype PMID:24603766.
Petrova et al. 2014 (PMID:24891445; full text cached). GcbA overexpression
gives 228 pmol/mg c-di-GMP versus under 35 for wild type; deletion halves
planktonic c-di-GMP. GcbA promotes initial attachment, suppresses flagellar
reversals, and represses swimming and swarming, but does not affect later
biofilm formation PMID:24891445.
Petrova & Sauer 2015 (PMID:25331436; abstract only, no full text from the PMC
API on 2026-11-05). GcbA DGC activity is needed for BdlA processing and so for
dispersal in response to many cues PMID:25331436. Glutamate is not named in the abstract.
Kulasakara et al. 2006 (PMID:16477007): PA4843 gave no detectable c-di-GMP in
the PA14 screen (below detection). Not cited by a PA4843 row.

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?
PTN002895344	GO:0052621 diguanylate cyclase activity	19	205 (28 taxa)	GO:0052621, EXP, PMID:24603766 (PseudoCAP)	SOUND	Expression of PA4843 raises cellular c-di-GMP about 30-fold (LC-MS/MS; full text read).	E. coli DosC, DgcC, DgcJ, DgcM, DgcN, DgcQ, DgcZ and others; B. subtilis DgcK, DgcP; Shewanella Q8EGF8; P. aeruginosa dgcP, wspR, PA1107, PA2870, PA3177, PA3343, PA4332	Yes. No GO_CENTRAL defect.
PTN002895344	GO:0052621 diguanylate cyclase activity	19	205 (28 taxa)	GO:0052621, IMP, PMID:24603766 (PseudoCAP)	SOUND	Deleting adcA in a amrZ mutant returns c-di-GMP to wild-type levels (full text read).	as above	Yes
PTN002895344	GO:0052621 diguanylate cyclase activity	19	205 (28 taxa)	GO:0052621, IDA, PMID:24891445 (PseudoCAP)	SOUND	Overexpression 228 vs under 35 pmol/mg c-di-GMP; deletion halves planktonic c-di-GMP (full text read).	as above	Yes

Batch consistency: see wspR-notes.md.

Other rows

GO:1902065 response to L-glutamate IMP (PMID:25331436, abstract only): GcbA
primes BdlA so that biofilms can disperse in response to many cues; the role is
in dispersal generally, not in sensing glutamate. GO has no biofilm dispersal
term (checked go-basic.obo). MARK_AS_OVER_ANNOTATED, PSEUDOCAP WRONG_TERM
defect, PROBABLE (abstract only; glutamate is presumably one of the tested
dispersal cues in the full text).
GO:1900233 IMP (PMID:24603766): supported in the amrZ-mutant background;
Petrova et al. found no effect on biofilm formation in wild type, so
KEEP_AS_NON_CORE.
GO:0000160 IEA: KEEP_AS_NON_CORE; the receivers are predicted, no cognate
kinase or phosphorylation shown.

Non-seed IBA node PTN002895351

Node-level GO_CENTRAL defects (plasma membrane; GO:0043709) are recorded once, on
wspR. For PA4843: PM IBA and IEA MARK_AS_OVER_ANNOTATED (soluble);
GO:0043709 IBA MODIFY to GO:1900189 (the deletion attaches less, consistent with
SadC); GO:1902201 IBA ACCEPT (deletion swims and swarms slightly more).