purF

UniProt ID: Q88LD5
Organism: Pseudomonas putida (strain ATCC 47054 / DSM 6125 / CFBP 8728 / NCIMB 11950 / KT2440)
Review Status: DRAFT
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Gene Description

PurF is the glutamine amidophosphoribosyltransferase that commits 5-phosphoribosyl diphosphate to de novo purine synthesis by forming 5-phosphoribosylamine. It catalyzes the first PRPP-to-IMP reaction.

Existing Annotations Review

GO Term Evidence Action Reason
GO:0000287 magnesium ion binding
IEA
GO_REF:0000104 		KEEP AS NON CORE
Summary: Valid cofactor binding, but not the core function of PurF.
Reason: Magnesium supports catalysis, while the enzyme-specific activity captures the core function.
GO:0004044 amidophosphoribosyltransferase activity
IEA
GO_REF:0000120 		ACCEPT
Summary: Correct enzyme-specific molecular function.
Reason: The exact Amidophosphoribosyltransferase product assignment supports this activity.
GO:0006189 'de novo' IMP biosynthetic process
IEA
GO_REF:0000120 		ACCEPT
Summary: Correct pathway assignment.
Reason: This enzyme catalyzes a required reaction between PRPP and IMP.
GO:0006541 L-glutamine metabolic process
IEA
GO_REF:0000104 		KEEP AS NON CORE
Summary: Correct supporting process for use of glutamine as the amide donor.
Reason: PurF consumes L-glutamine and releases L-glutamate during phosphoribosylamine formation, but de novo IMP biosynthesis is its defining pathway role.
GO:0009113 purine nucleobase biosynthetic process
IEA
GO_REF:0000120 		MARK AS OVER ANNOTATED
Summary: Nucleobase-process annotation does not match the nucleotide product of this pathway.
Reason: The PRPP-to-IMP pathway produces a purine nucleotide, not a free purine nucleobase; GO:0009113 is therefore not a broader parent of GO:0006189.

Core Functions

Catalyzes the committed first reaction of de novo IMP synthesis.

Molecular Function:
amidophosphoribosyltransferase activity
Directly Involved In:
'de novo' IMP biosynthetic process
Supporting Evidence:
  • file:PSEPK/purF/purF-uniprot.txt
    RecName: Full=Amidophosphoribosyltransferase
  • file:PSEPK/purF/purF-deep-research-openscientist.md
    *purF* encodes **amidophosphoribosyltransferase (GPATase)**

References

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Suggested Experiments

Experiment: Test a clean purF deletion for purine auxotrophy and rescue by the appropriate downstream purine intermediate or by gene complementation.

Deep Research

OpenScientist

(purF-deep-research-openscientist.md)

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📚 Additional Documentation

Notes

(purF-notes.md)

purF curation notes

  • UniProt identifies Q88LD5 as Amidophosphoribosyltransferase [file:PSEPK/purF/purF-uniprot.txt "RecName: Full=Amidophosphoribosyltransferase"].
  • Retain magnesium binding and L-glutamine metabolic process as non-core: glutamine is
    the amide donor consumed by the PurF reaction, while de novo IMP biosynthesis is the
    defining pathway role.
  • Mark purine nucleobase biosynthetic process as over-annotated because this route
    produces the nucleotide IMP rather than a free purine nucleobase; GO:0009113 is not
    a broad parent of GO:0006189.

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