PA5376 (Q9HTI8) notes

Identity: CbcV, the ATPase of the Cbc QAC importer

Q9HTI8, unreviewed, locus PA5376, "Probable ATP-binding component of ABC
transporter". ABC transporter ATP-binding domain (PF00005, PS50893),
NCBIfam TIGR03415 (ABC_choXWV_ATP), InterPro IPR022473
(ABC_trnsptr_Choline_ATP-bd), PANTHER PTHR43869:SF1 (ProV-like glycine
betaine/proline betaine ATPase). [file:PSEAE/PA5376/PA5376-uniprot.txt "ABC_choXWV_ATP"]
Operon cbcXWV = PA5378 (CbcX, SBP), PA5377 (CbcW, permease; reviewed in
genes/PSEAE/PA5377) and PA5376 (CbcV, ATPase, this entry).
PMID:19919675

Literature

Chen et al. 2010, PMID:19919675 (full text cached).
- PA14 PA5376::tn fails to grow on choline, betaine and carnitine:
PMID:19919675
PMID:19919675
- Complementation with PAO1 cbcXWV, and heterologous uptake in E. coli MKH13:
PMID:19919675
PMID:19919675
- Carnitine needs the trans-encoded SBP CaiX (PA5388):
PMID:19919675

Malek et al. 2011, PMID:21478341 (abstract only). CbcXWV supports growth on
choline; CbcXWV and BetT1 dominate under hypo-osmolar conditions, BetT3 under
hyperosmolar ones. PMID:21478341
No osmoprotective role shown for Cbc, so the ARBA "response to osmotic
stress" row is marked over-annotated.

Meadows et al. 2018, PMID:29517479 (abstract only).
PMID:29517479

Chen et al. 2013, PMID:23763788 (abstract only). P. syringae QAC
bioreporters. The abstract mentions neither sulfate nor PA5376, so the
PseudoCAP "ABC-type sulfate transporter activity" and "sulfur compound
transmembrane transporter activity" IDAs cannot be checked. Inorganic sulfate
is implausible for a ProV/ChoV-type QAC importer; choline-O-sulfate is a
candidate. UNDECIDED, with a SUSPECTED PSEUDOCAP WRONG_TERM (CHECK) on the
sulfate row.

Ontology notes (same as PA5377)

GO:0005275 amine transmembrane transporter activity is the wrong branch for
quaternary ammonium compounds; GO:0015418 ABC-type QAC transporting activity
is right.
GO:0031459 (glycine betaine) is_a GO:0015418; GO:0033266 (choline) is_a
GO:0015220 but not GO:0015418. GO:0015418 is kept (ACCEPT) as the only term
that covers the CaiX-dependent carnitine mode.
GO:0055052 (substrate-binding subunit-containing ABC complex) is accepted, so
the GO:0043190 rows are TOO_GENERAL, although the claim and the IBD are sound.

PseudoCAP IBA-seed assessment

Seeds from .cache/paint/IBD.gaf (column 8), other seeds' experimental rows
from QuickGO (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?
PTN002466744	GO:0043190 ATP-binding cassette (ABC) transporter complex	2	14 (12 taxa)	GO:0043190, IDA, PMID:19919675	SOUND	CbcV is the NBD of the binding protein-dependent CbcWV importer; mutant and complementation data support the complex. Term suits all ABC NBDs in the clade.	E. coli ProV P14175 (ComplexPortal ProU complex GO:1990222 IPI, PMID:23249124)	Yes
PTN002466744	GO:0005275 amine transmembrane transporter activity	2	14 (12 taxa)	GO:0005275, IDA, PMID:19919675	WRONG	Transport is real, but choline, betaine and carnitine are quaternary ammonium compounds, not amines in GO; correct branch GO:0015418.	E. coli ProV P14175 (EcoCyc GO:0005275 IDA, PMID:23249124; glycine betaine/proline betaine, also QACs)	No: the other seed has the same branch error, so the node term does not suit the clade. GO_CENTRAL REPOINT to GO:0015418 (PROBABLE) recorded on the IBA row.

Defects: PSEUDOCAP WRONG_TERM GO:0005275 (CONFIRMED, full text read);
GO_CENTRAL WRONG_TERM PTN002466744 GO:0005275 (PROBABLE). Further PSEUDOCAP
CHECKs (not seeds): two catabolic-process rows (PROBABLE, indirect growth
phenotype), sulfate transporter (SUSPECTED), carnitine transport reference
PMID:21478341 (SUSPECTED). These mirror the PA5377 review, whose permease
node PTN000766131 carries the parallel GO:0005275 IBD error.