gatA

UniProt ID: Q88PB9
Organism: Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440)
Review Status: DRAFT
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Gene Description

GatA is the catalytic glutaminase subunit of the bacterial GatABC amidotransferase in Pseudomonas putida KT2440. Within the heterotrimer it hydrolyzes glutamine and supplies ammonia for ATP-dependent conversion of misacylated Glu-tRNA(Gln) or Asp-tRNA(Asn) to correctly charged tRNAs.

Existing Annotations Review

GO Term Evidence Action Reason
GO:0003824 catalytic activity
IEA
GO_REF:0000002
MARK AS OVER ANNOTATED
Summary: Generic catalytic activity is true but uninformative beside the separately annotated GatA glutaminase activity.
Reason: GatA belongs to the amidase family and GO:0004359 already captures its glutamine-hydrolysis site specifically.
Supporting Evidence:
file:PSEPK/gatA/gatA-uniprot.txt
Belongs to the amidase family. GatA subfamily.
GO:0004359 glutaminase activity
IEA
GO_REF:0000120
ACCEPT
Summary: GatA is the glutamine-hydrolyzing subunit of GatABC.
Reason: The amidase-family assignment and catalytic residues support glutaminase activity.
Supporting Evidence:
file:PSEPK/gatA/gatA-uniprot.txt
Belongs to the amidase family. GatA subfamily.
GO:0005737 cytoplasm
IEA
GO_REF:0000117
KEEP AS NON CORE
Summary: A soluble cytoplasmic location is plausible but not the defining GatA function.
Reason: GatA is a subunit of the soluble tRNA-processing heterotrimer; the exact record has no membrane topology or export signal.
Supporting Evidence:
file:PSEPK/gatA/gatA-uniprot.txt
SUBUNIT: Heterotrimer of A, B and C subunits.
GO:0006412 translation
IEA
GO_REF:0000120
KEEP AS NON CORE
Summary: GatA supports translation through tRNA transamidation, but translation is downstream and broad.
Reason: The direct process is glutaminyl-tRNA biosynthesis via transamidation.
Supporting Evidence:
file:PSEPK/gatA/gatA-uniprot.txt
Allows the formation of correctly charged Gln-tRNA(Gln)
GO:0030956 glutamyl-tRNA(Gln) amidotransferase complex
IEA
GO_REF:0000120
ACCEPT
Summary: GatA is a required subunit of the GatABC amidotransferase complex.
Reason: UniProt specifies a heterotrimer containing A, B, and C subunits.
Supporting Evidence:
file:PSEPK/gatA/gatA-uniprot.txt
SUBUNIT: Heterotrimer of A, B and C subunits.
GO:0050567 glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity
IEA
GO_REF:0000002
MARK AS OVER ANNOTATED
Summary: GatA contributes its glutaminase chemistry to the complete GatABC reaction.
Reason: The reviewed record assigns the Glu-tRNA(Gln) transamidation reaction to the heterotrimeric enzyme, so GatA contributes to rather than independently enables the whole-complex activity.
Supporting Evidence:
file:PSEPK/gatA/gatA-uniprot.txt
Reaction=L-glutamyl-tRNA(Gln) + L-glutamine + ATP + H2O
GO:0070681 glutaminyl-tRNAGln biosynthesis via transamidation
IEA
GO_REF:0000104
UNDECIDED
Summary: GatABC has the reaction capacity, but this route is not established in KT2440.
Reason: The exact record describes transamidation of Glu-tRNA(Gln), but KT2440 also has direct GlnRS and no evidence establishes that its GltX supplies Glu-tRNA(Gln). The characterized Pseudomonas aeruginosa system instead uses discriminating GluRS and direct GlnRS.
Supporting Evidence:
file:PSEPK/gatA/gatA-uniprot.txt
Allows the formation of correctly charged Gln-tRNA(Gln)
PMID:14729703
GluRS is discriminating in the sense that it does not glutamylate tRNA(Gln)
GO:0050566 asparaginyl-tRNA synthase (glutamine-hydrolyzing) activity
ISS
PMID:14729703
Direct glutaminyl-tRNA biosynthesis and indirect asparaginyl...
NEW
Summary: GatA contributes glutamine hydrolysis to GatABC-dependent conversion of Asp-tRNA(Asn) to Asn-tRNA(Asn).
Reason: The conserved GatABC complex, the KT2440 GatB/GatC asparaginyl reaction records, non-discriminating AspS, and the experimentally established Pseudomonas indirect Asn route support this complex-level activity.
Supporting Evidence:
PMID:14729703
The essential role of AdT in the formation of Asn-tRNA in P. aeruginosa
GO:0043039 tRNA aminoacylation
ISS
PMID:14729703
Direct glutaminyl-tRNA biosynthesis and indirect asparaginyl...
NEW
Summary: GatA participates in the indirect ND-AspRS/GatABC route to Asn-tRNA(Asn).
Reason: KT2440 lacks a canonical AsnRS, encodes non-discriminating AspS, and carries the conserved GatABC machinery experimentally shown to perform this route in Pseudomonas aeruginosa. This row originally proposed GO:0070680 asparaginyl-tRNAAsn biosynthesis via transamidation, which is obsolete in the GO release 2026-07-26. Its replaced_by, GO:0070981 L-asparagine biosynthetic process, is not used because the indirect route ends at Asn-tRNA(Asn), not free asparagine, so GO:0043039 tRNA aminoacylation (the is_a parent of the obsolete term) is asserted instead. The GOA descendant GO:0070681 (glutaminyl-tRNAGln biosynthesis via transamidation) does not make this row redundant: that row is UNDECIDED here because the Gln transamidation route is not established in KT2440, whereas this row rests on the Asn route.
Supporting Evidence:
PMID:14729703
The essential role of AdT in the formation of Asn-tRNA in P. aeruginosa

Core Functions

Hydrolyzes glutamine within GatABC and supplies ammonia for conversion of Asp-tRNA(Asn) to Asn-tRNA(Asn), the required indirect Asn charging route in KT2440.

Supporting Evidence:
  • PMID:14729703
    The essential role of AdT in the formation of Asn-tRNA in P. aeruginosa

References

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Notes

(gatA-notes.md)

gatA curation notes

  • Q88PB9 is the amidase-family GatA subunit of heterotrimeric GatABC
    [file:PSEPK/gatA/gatA-uniprot.txt, "SUBUNIT: Heterotrimer of A, B and C subunits."].
  • GatA supplies glutaminase chemistry to the complex; full glutaminyl-tRNA
    synthase activity is a property of assembled GatABC.
  • GatABC is also required for the indirect Asn-tRNA(Asn) route. The homologous
    Pseudomonas aeruginosa pathway was established experimentally
    [PMID:14729703, "The essential role of AdT in the formation of Asn-tRNA in P. aeruginosa"].

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