PA1340 (Q9I404) notes
Review session 2026-10-28 (PseudoCAP IBA-seed protocol)
Fetched with just fetch-gene PSEAE PA1340 (no gene symbol; locus tag used as
folder name). Accession Q9I404 matches the worklist (rank 100). Unreviewed
TrEMBL entry (PE 3). No deep-research provider was used. Reviewed alongside
PA1341 (same operon).
Identity
- HisMQ-subfamily ABC permease; PANTHER PTHR30614:SF1 "GLUTAMATE_ASPARTATE
IMPORT PERMEASE PROTEIN GLTK"; four predicted TM helices; TCDB 3.A.1.3.22.
- Operon PA1342-PA1339, orthologous to P. putida AatJQMP (PP1071-PP1068) and
E. coli GltIJKL. PA1340 is the GltK-type permease (AatM by operon order).
Literature
- Johnson et al. 2008 (PMID:18833300; full text cached), Biolog/plate screen of
transposon mutants (PAK background):
- PMID:18833300 (PA1340 induced 9.4-fold by L-Glu, Table 3).
- PMID:18833300 Table 2: L-Glu C+/-, L-Gln
C+/-, L-Glu N+/-, D-Glu N-, N-acetyl-L-Glu N+/-.
- Singh and Rohm 2008 (PMID:18310026; abstract only) is a P. putida KT2440
study: PMID:18310026 Mutants were of
the binding protein (aatJ) and ATPase (aatP): PMID:18310026. Binding: PMID:18310026
The abstract also names a periplasmic glutaminase/asparaginase AnsB in the
same AauR regulon, so Gln growth phenotypes may partly reflect deamidation.
- He et al. 2014 (PMID:25082951; abstract only), PAO1 D-Glu catabolism:
PMID:25082951. Which aat gene was mutated is not stated in
the abstract.
Key finding: the PseudoCAP IMP GO:0006868 L-glutamine transport to
PMID:18310026 attaches a P. putida mutant phenotype (of the binding protein,
not the permease) to P. aeruginosa PA1340. The abstract states the organism and
the genes explicitly, so this is a reference/evidence-code error. PA1340's own
glutamine evidence is the partial Biolog phenotype in PMID:18833300.
Clade checks (cached PAINT IBD/leaf GAF; QuickGO 2026-10-28)
- PTN000764525 (GO:0006868 L-glutamine transport; sole seed PA1340): 6 leaves
in 5 taxa: E. coli GltK (P0AER5), Salmonella GltK, Yersinia GltK,
Bradyrhizobium bll7598, blr3098, PA1340. The only other experimental
annotation is plasma membrane (IDA) for E. coli GltK. GltIJKL is the E. coli
glutamate/aspartate importer; glutamine is carried by GlnHPQ. The sister GltJ
node PTN004745596 carries L-glutamate import (sole seed PA1341). Glutamine
is the wrong node term for this clade.
- PTN000770157 (GO:0006865 amino acid transport; 5 seeds): see PA1341 notes;
appropriate general term.
PseudoCAP IBA-seed assessment
| PTN node |
node term |
n_seeds |
leaf IBAs |
seed annotation (term, evidence, PMID) |
verdict |
rationale |
| PTN000770157 |
GO:0006865 amino acid transport |
5 |
84 (28 taxa) |
GO:0006868 IMP PMID:18310026; GO:0042940 IMP PMID:25082951; GO:0051938 IMP PMID:18833300; GO:1903803 IMP PMID:18833300 (PseudoCAP) |
SOUND |
General term for a HisMQ-subfamily permease clade; it is supported by the sound PA1340 L-Glu rows and by E. coli seeds, whatever the status of the glutamine row. |
| PTN000764525 |
GO:0006868 L-glutamine transport |
1 (sole) |
6 (5 taxa) |
GO:0006868, IMP, PMID:18310026 (PseudoCAP) |
WRONG |
The cited paper's abstract describes P. putida aatJ/aatP mutants, not PA1340 or any GltK-type permease, so the IMP is unlikely to apply (full text not read). PA1340's own Gln phenotype (PMID:18833300) is partial, and Gln is at most a low-affinity secondary substrate. The node is a GltK clade of glutamate/aspartate importers; L-glutamate import (as on the sister GltJ node) would fit. |
Defects filed: PSEUDOCAP WRONG_EVIDENCE_CODE (CHECK) on the GO:0006868 IMP
row (P. putida paper); GO_CENTRAL WRONG_TERM (CHECK, suggested GO:0051938) for
the PTN000764525 IBD on the IBA row. On the PA1340 leaf itself, glutamine
import is kept as non-core.
Decisions summary
- ACCEPT: plasma membrane (IBA, IEA).
- KEEP_AS_NON_CORE: D-amino acid transport (IMP), L-glutamine import across
plasma membrane (IMP).
- MODIFY: L-glutamine transport (IBA, IMP) -> L-glutamine import across plasma
membrane; L-glutamate import (IMP) and transmembrane transport (IEA) ->
L-glutamate import across plasma membrane; amino acid transmembrane
transporter activity (IBA) and transmembrane transporter activity (IEA) ->
ATPase-coupled L-glutamate transmembrane transporter activity; membrane ->
plasma membrane; ABC transporter complex -> substrate-binding
subunit-containing ABC transporter complex.
Audit 2026-10-29: confidence matched to what was read
PMID:18310026 has no PMC copy and the publisher page was not retrievable,
so it remains abstract-only. Both defects stay PROBABLE: the abstract states
outright that the system studied is P. putida KT2440 AatJMQP (PP1071-PP1068)
with aatJ and aatP mutants. That would allow CONFIRMED under the protocol,
but without reading the full text the call is not upgraded. Wording that
PA1340 "was not tested" is now limited to what the abstract reports, and the
reference correctness is changed from MISCITED to UNVERIFIED. No action
changes.