gatC

UniProt ID: Q88PB8
Organism: Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440)
Review Status: DRAFT
πŸ“ Provide Detailed Feedback

Gene Description

GatC is the small structural subunit of the heterotrimeric GatABC tRNA-dependent amidotransferase in Pseudomonas putida KT2440. It supports the GatA/GatB complex that converts misacylated Glu-tRNA(Gln) or Asp-tRNA(Asn) to correctly charged Gln-tRNA(Gln) or Asn-tRNA(Asn).

Existing Annotations Review

GO Term Evidence Action Reason
GO:0006412 translation
IEA
GO_REF:0000104
KEEP AS NON CORE
Summary: GatC supports translation through tRNA transamidation, but translation is downstream and broad.
Reason: Its direct role is structural participation in GatABC-dependent tRNA charging.
Supporting Evidence:
file:PSEPK/gatC/gatC-uniprot.txt
SUBUNIT: Heterotrimer of A, B and C subunits.
GO:0006450 regulation of translational fidelity
IEA
GO_REF:0000002
MARK AS OVER ANNOTATED
Summary: Correct charging is a consequence of GatABC transamidation, not a distinct GatC fidelity-regulatory activity.
Reason: Correct amino acid identity is a consequence of GatABC transamidation rather than a separate GatC regulatory activity.
Supporting Evidence:
file:PSEPK/gatC/gatC-uniprot.txt
Allows the formation of correctly charged Asn-tRNA(Asn) or
GO:0070681 glutaminyl-tRNAGln biosynthesis via transamidation
IEA
GO_REF:0000118
UNDECIDED
Summary: GatABC has the reaction capacity, but this route is not established in KT2440.
Reason: UniProt records the Glu-tRNA(Gln) reaction for the A/B/C heterotrimer, but KT2440 has direct GlnRS and no evidence establishes production of the required Glu-tRNA(Gln) precursor by its GltX. The characterized Pseudomonas aeruginosa system instead uses discriminating GluRS.
Supporting Evidence:
file:PSEPK/gatC/gatC-uniprot.txt
Reaction=L-glutamyl-tRNA(Gln) + L-glutamine + ATP + H2O
PMID:14729703
GluRS is discriminating in the sense that it does not glutamylate tRNA(Gln)
GO:0030956 glutamyl-tRNA(Gln) amidotransferase complex
ISS
file:PSEPK/gatC/gatC-uniprot.txt
NEW
Summary: GatC is explicitly identified as the C subunit of heterotrimeric GatABC.
Reason: This missing complex annotation captures GatC's direct structural role more precisely than the broad translation and fidelity annotations.
Supporting Evidence:
file:PSEPK/gatC/gatC-uniprot.txt
SUBUNIT: Heterotrimer of A, B and C subunits.
GO:0050566 asparaginyl-tRNA synthase (glutamine-hydrolyzing) activity
ISS
PMID:14729703
Direct glutaminyl-tRNA biosynthesis and indirect asparaginyl...
NEW
Summary: GatC contributes structurally to GatABC-dependent conversion of Asp-tRNA(Asn) to Asn-tRNA(Asn).
Reason: The KT2440 GatC record includes the exact asparaginyl-tRNA synthase reaction, while comparative experiments establish the indirect Pseudomonas Asn route.
Supporting Evidence:
file:PSEPK/gatC/gatC-uniprot.txt
Reaction=L-aspartyl-tRNA(Asn) + L-glutamine + ATP + H2O
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: GatC is required in GatABC for indirect Asn-tRNA(Asn) biosynthesis via transamidation.
Reason: KT2440 lacks a canonical AsnRS, encodes non-discriminating AspS, and carries GatABC with the exact Asn-forming reaction documented for GatC. 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:
file:PSEPK/gatC/gatC-uniprot.txt
Allows the formation of correctly charged Asn-tRNA(Asn) or

Core Functions

Structural GatABC subunit required for conversion of Asp-tRNA(Asn) to Asn-tRNA(Asn), the required indirect Asn charging route in KT2440.

Supporting Evidence:
  • file:PSEPK/gatC/gatC-uniprot.txt
    Allows the formation of correctly charged Asn-tRNA(Asn) or

References

Loading supporting content…

Download this section (compressed HTML)

πŸ“š Additional Documentation

Notes

(gatC-notes.md)

gatC curation notes

  • Q88PB8 is the small structural GatC subunit of heterotrimeric GatABC
    [file:PSEPK/gatC/gatC-uniprot.txt, "SUBUNIT: Heterotrimer of A, B and C subunits."].
  • GatC was curated as contributing to the complex reaction rather than as an
    independently catalytic enzyme.
  • Both GatABC outputs are represented at the complex level. The indirect
    Asn-tRNA(Asn) route is supported by the exact Q88PB8 reaction and comparative
    Pseudomonas experiments [PMID:14729703, "The essential role of AdT in the formation of Asn-tRNA in P. aeruginosa"].

πŸ“„ View Raw YAML

Loading supporting content…

Download this section (compressed HTML)