pyridoxal 5'-phosphate salvage I

MetaCyc:PLPSAL-PWY

The pyridoxal 5'-phosphate salvage I pathway phosphorylates pyridoxal, pyridoxamine, and pyridoxine, then oxidizes pyridoxamine 5'-phosphate and pyridoxine 5'-phosphate to regenerate pyridoxal 5'-phosphate.

Pathway type

cofactor biosynthesis

Organism scope

Escherichia coli NCBITaxon:562

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Pathway network

26 nodes · 42 asserted directed edges

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Reaction / activity
Chemical / cofactor
Protein / complex
Other participant
Solid arrow: mechanistic relation
Dashed arrow: membership, location or cofactor relation

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Components and activities

Declared biological components and source reaction directions
Node	Kind or role	Source direction
Escherichia coli `NCBITaxon:562`	taxon
pyridoxal kinase `EC:2.7.1.35`	molecular activity
pyridoxine 5'-phosphate oxidase `EC:1.4.3.5`	molecular activity
pyridoxal `CHEBI:17310`	small molecule
ATP `CHEBI:30616`	small molecule
pyridoxal 5'-phosphate `CHEBI:597326`	small molecule
ADP `CHEBI:456216`	small molecule
H(+) `CHEBI:15378`	small molecule
pyridoxamine `CHEBI:57761`	small molecule
pyridoxamine 5'-phosphate `CHEBI:58451`	small molecule
O2 `CHEBI:15379`	small molecule
H2O `CHEBI:15377`	small molecule
H2O2 `CHEBI:16240`	small molecule
NH4(+) `CHEBI:28938`	small molecule
pyridoxine `CHEBI:16709`	small molecule
pyridoxine 5'-phosphate `CHEBI:58589`	small molecule
Pyridoxine/pyridoxamine 5'-phosphate oxidase `UniProtKB:P0AFI7`	protein
FMN(3-) `CHEBI:58210`	cofactor
Pyridoxine/pyridoxal/pyridoxamine kinase `UniProtKB:P40191`	protein
zinc(2+) `CHEBI:29105`	cofactor
magnesium(2+) `CHEBI:18420`	cofactor
Pyridoxal kinase PdxY `UniProtKB:P77150`	protein
pyridoxal kinase reaction `RHEA:10225`	reaction	left to right
pyridoxamine kinase reaction `RHEA:25105`	reaction	left to right
pyridoxamine 5'-phosphate oxidase reaction `RHEA:15818`	reaction	left to right
pyridoxine kinase reaction `RHEA:25109`	reaction	left to right
pyridoxine 5'-phosphate oxidase reaction `RHEA:15150`	reaction	left to right

Mechanistic edges

Mechanistic edges and their cited evidence
Subject	Predicate and description	Object	Evidence
pyridoxal `CHEBI:17310`	consumes	pyridoxal kinase reaction `RHEA:10225`	RHEA:10225 Source assertion: Rhea lists CHEBI:17310 on the substrates side of RHEA:10225 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/10225']/rh:substrates; rh:contains/rh:compound/rh:accession`
ATP `CHEBI:30616`	consumes	pyridoxal kinase reaction `RHEA:10225`	RHEA:10225 Source assertion: Rhea lists CHEBI:30616 on the substrates side of RHEA:10225 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/10225']/rh:substrates; rh:contains/rh:compound/rh:accession`
pyridoxal kinase reaction `RHEA:10225`	produces	H(+) `CHEBI:15378`	RHEA:10225 Source assertion: Rhea lists CHEBI:15378 on the products side of RHEA:10225 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/10225']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxal kinase reaction `RHEA:10225`	produces	ADP `CHEBI:456216`	RHEA:10225 Source assertion: Rhea lists CHEBI:456216 on the products side of RHEA:10225 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/10225']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxal kinase reaction `RHEA:10225`	produces	pyridoxal 5'-phosphate `CHEBI:597326`	RHEA:10225 Source assertion: Rhea lists CHEBI:597326 on the products side of RHEA:10225 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/10225']/rh:products; rh:contains/rh:compound/rh:accession`
ATP `CHEBI:30616`	consumes	pyridoxamine kinase reaction `RHEA:25105`	RHEA:25105 Source assertion: Rhea lists CHEBI:30616 on the substrates side of RHEA:25105 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/25105']/rh:substrates; rh:contains/rh:compound/rh:accession`
pyridoxamine `CHEBI:57761`	consumes	pyridoxamine kinase reaction `RHEA:25105`	RHEA:25105 Source assertion: Rhea lists CHEBI:57761 on the substrates side of RHEA:25105 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/25105']/rh:substrates; rh:contains/rh:compound/rh:accession`
pyridoxamine kinase reaction `RHEA:25105`	produces	H(+) `CHEBI:15378`	RHEA:25105 Source assertion: Rhea lists CHEBI:15378 on the products side of RHEA:25105 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/25105']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxamine kinase reaction `RHEA:25105`	produces	ADP `CHEBI:456216`	RHEA:25105 Source assertion: Rhea lists CHEBI:456216 on the products side of RHEA:25105 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/25105']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxamine kinase reaction `RHEA:25105`	produces	pyridoxamine 5'-phosphate `CHEBI:58451`	RHEA:25105 Source assertion: Rhea lists CHEBI:58451 on the products side of RHEA:25105 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/25105']/rh:products; rh:contains/rh:compound/rh:accession`
H2O `CHEBI:15377`	consumes	pyridoxamine 5'-phosphate oxidase reaction `RHEA:15818`	RHEA:15818 Source assertion: Rhea lists CHEBI:15377 on the substrates side of RHEA:15818 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/15818']/rh:substrates; rh:contains/rh:compound/rh:accession`
O2 `CHEBI:15379`	consumes	pyridoxamine 5'-phosphate oxidase reaction `RHEA:15818`	RHEA:15818 Source assertion: Rhea lists CHEBI:15379 on the substrates side of RHEA:15818 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/15818']/rh:substrates; rh:contains/rh:compound/rh:accession`
pyridoxamine 5'-phosphate `CHEBI:58451`	consumes	pyridoxamine 5'-phosphate oxidase reaction `RHEA:15818`	RHEA:15818 Source assertion: Rhea lists CHEBI:58451 on the substrates side of RHEA:15818 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/15818']/rh:substrates; rh:contains/rh:compound/rh:accession`
pyridoxamine 5'-phosphate oxidase reaction `RHEA:15818`	produces	H2O2 `CHEBI:16240`	RHEA:15818 Source assertion: Rhea lists CHEBI:16240 on the products side of RHEA:15818 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/15818']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxamine 5'-phosphate oxidase reaction `RHEA:15818`	produces	NH4(+) `CHEBI:28938`	RHEA:15818 Source assertion: Rhea lists CHEBI:28938 on the products side of RHEA:15818 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/15818']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxamine 5'-phosphate oxidase reaction `RHEA:15818`	produces	pyridoxal 5'-phosphate `CHEBI:597326`	RHEA:15818 Source assertion: Rhea lists CHEBI:597326 on the products side of RHEA:15818 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/15818']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxine `CHEBI:16709`	consumes	pyridoxine kinase reaction `RHEA:25109`	RHEA:25109 Source assertion: Rhea lists CHEBI:16709 on the substrates side of RHEA:25109 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/25109']/rh:substrates; rh:contains/rh:compound/rh:accession`
ATP `CHEBI:30616`	consumes	pyridoxine kinase reaction `RHEA:25109`	RHEA:25109 Source assertion: Rhea lists CHEBI:30616 on the substrates side of RHEA:25109 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/25109']/rh:substrates; rh:contains/rh:compound/rh:accession`
pyridoxine kinase reaction `RHEA:25109`	produces	H(+) `CHEBI:15378`	RHEA:25109 Source assertion: Rhea lists CHEBI:15378 on the products side of RHEA:25109 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/25109']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxine kinase reaction `RHEA:25109`	produces	ADP `CHEBI:456216`	RHEA:25109 Source assertion: Rhea lists CHEBI:456216 on the products side of RHEA:25109 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/25109']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxine kinase reaction `RHEA:25109`	produces	pyridoxine 5'-phosphate `CHEBI:58589`	RHEA:25109 Source assertion: Rhea lists CHEBI:58589 on the products side of RHEA:25109 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/25109']/rh:products; rh:contains/rh:compound/rh:accession`
O2 `CHEBI:15379`	consumes	pyridoxine 5'-phosphate oxidase reaction `RHEA:15150`	RHEA:15150 Source assertion: Rhea lists CHEBI:15379 on the substrates side of RHEA:15150 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/15150']/rh:substrates; rh:contains/rh:compound/rh:accession`
pyridoxine 5'-phosphate `CHEBI:58589`	consumes	pyridoxine 5'-phosphate oxidase reaction `RHEA:15150`	RHEA:15150 Source assertion: Rhea lists CHEBI:58589 on the substrates side of RHEA:15150 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/15150']/rh:substrates; rh:contains/rh:compound/rh:accession`
pyridoxine 5'-phosphate oxidase reaction `RHEA:15150`	produces	H2O2 `CHEBI:16240`	RHEA:15150 Source assertion: Rhea lists CHEBI:16240 on the products side of RHEA:15150 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/15150']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxine 5'-phosphate oxidase reaction `RHEA:15150`	produces	pyridoxal 5'-phosphate `CHEBI:597326`	RHEA:15150 Source assertion: Rhea lists CHEBI:597326 on the products side of RHEA:15150 in this directed reaction. Source location `rdf:Description[@rdf:about='http://rdf.rhea-db.org/15150']/rh:products; rh:contains/rh:compound/rh:accession`
pyridoxal kinase `EC:2.7.1.35`	catalyzes	pyridoxal kinase reaction `RHEA:10225`	RHEA:10224 Source assertion: Rhea associates EC:2.7.1.35 with the reaction family containing RHEA:10225. Source location `rh:ec`
pyridoxal kinase `EC:2.7.1.35`	catalyzes	pyridoxamine kinase reaction `RHEA:25105`	RHEA:25104 Source assertion: Rhea associates EC:2.7.1.35 with the reaction family containing RHEA:25105. Source location `rh:ec`
pyridoxine 5'-phosphate oxidase `EC:1.4.3.5`	catalyzes	pyridoxamine 5'-phosphate oxidase reaction `RHEA:15818`	RHEA:15817 Source assertion: Rhea associates EC:1.4.3.5 with the reaction family containing RHEA:15818. Source location `rh:ec`
pyridoxal kinase `EC:2.7.1.35`	catalyzes	pyridoxine kinase reaction `RHEA:25109`	RHEA:25108 Source assertion: Rhea associates EC:2.7.1.35 with the reaction family containing RHEA:25109. Source location `rh:ec`
pyridoxine 5'-phosphate oxidase `EC:1.4.3.5`	catalyzes	pyridoxine 5'-phosphate oxidase reaction `RHEA:15150`	RHEA:15149 Source assertion: Rhea associates EC:1.4.3.5 with the reaction family containing RHEA:15150. Source location `rh:ec`
pyridoxamine kinase reaction `RHEA:25105`	precedes	pyridoxamine 5'-phosphate oxidase reaction `RHEA:15818`	MetaCyc:PLPSAL-PWY Source assertion: MetaCyc pathway ordering places RHEA:25105 before RHEA:15818 in this pathway. Shared intermediate: CHEBI:58451. Source location `Pathway/reaction-ordering and reaction-layout; Rhea-to-MetaCyc cross-references`
pyridoxine kinase reaction `RHEA:25109`	precedes	pyridoxine 5'-phosphate oxidase reaction `RHEA:15150`	MetaCyc:PLPSAL-PWY Source assertion: MetaCyc pathway ordering places RHEA:25109 before RHEA:15150 in this pathway. Shared intermediate: CHEBI:58589. Source location `Pathway/reaction-ordering and reaction-layout; Rhea-to-MetaCyc cross-references`
Pyridoxine/pyridoxamine 5'-phosphate oxidase `UniProtKB:P0AFI7`	enables	pyridoxamine 5'-phosphate oxidase reaction `RHEA:15818`	UniProtKB:P0AFI7 Source assertion: UniProt annotates UniProtKB:P0AFI7 with catalytic activity for the reaction family of RHEA:15818. Annotation evidence: ECO:0000269; organism taxon: NCBITaxon:83333. Source location `comments[commentType='CATALYTIC ACTIVITY'].reaction.reactionCrossReferences`
Pyridoxine/pyridoxamine 5'-phosphate oxidase `UniProtKB:P0AFI7`	enables	pyridoxine 5'-phosphate oxidase reaction `RHEA:15150`	UniProtKB:P0AFI7 Source assertion: UniProt annotates UniProtKB:P0AFI7 with catalytic activity for the reaction family of RHEA:15150. Annotation evidence: ECO:0000269; organism taxon: NCBITaxon:83333. Source location `comments[commentType='CATALYTIC ACTIVITY'].reaction.reactionCrossReferences`
Pyridoxine/pyridoxamine 5'-phosphate oxidase `UniProtKB:P0AFI7`	has_cofactor	FMN(3-) `CHEBI:58210`	UniProtKB:P0AFI7 Source assertion: UniProt lists CHEBI:58210 as a cofactor of UniProtKB:P0AFI7 (evidence: ECO:0000269). Binds 1 FMN per subunit. Source location `comments[commentType='COFACTOR'].cofactors and note`
Pyridoxine/pyridoxal/pyridoxamine kinase `UniProtKB:P40191`	enables	pyridoxal kinase reaction `RHEA:10225`	UniProtKB:P40191 Source assertion: UniProt annotates UniProtKB:P40191 with catalytic activity for the reaction family of RHEA:10225. Annotation evidence: ECO:0000269; organism taxon: NCBITaxon:83333. Source location `comments[commentType='CATALYTIC ACTIVITY'].reaction.reactionCrossReferences`
Pyridoxine/pyridoxal/pyridoxamine kinase `UniProtKB:P40191`	enables	pyridoxine kinase reaction `RHEA:25109`	UniProtKB:P40191 Source assertion: UniProt annotates UniProtKB:P40191 with catalytic activity for the reaction family of RHEA:25109. Annotation evidence: ECO:0000269; organism taxon: NCBITaxon:83333. Source location `comments[commentType='CATALYTIC ACTIVITY'].reaction.reactionCrossReferences`
Pyridoxine/pyridoxal/pyridoxamine kinase `UniProtKB:P40191`	enables	pyridoxamine kinase reaction `RHEA:25105`	UniProtKB:P40191 Source assertion: UniProt annotates UniProtKB:P40191 with catalytic activity for the reaction family of RHEA:25105. Annotation evidence: ECO:0000269; organism taxon: NCBITaxon:83333. Source location `comments[commentType='CATALYTIC ACTIVITY'].reaction.reactionCrossReferences`
Pyridoxine/pyridoxal/pyridoxamine kinase `UniProtKB:P40191`	has_cofactor	zinc(2+) `CHEBI:29105`	UniProtKB:P40191 Source assertion: UniProt lists CHEBI:29105 as a cofactor of UniProtKB:P40191 (evidence: ECO:0000269). Can use both zinc and magnesium that is complexed with ATP. However, magnesium seems to be the preferred metal used under physiological conditions. Source location `comments[commentType='COFACTOR'].cofactors and note`
Pyridoxine/pyridoxal/pyridoxamine kinase `UniProtKB:P40191`	has_cofactor	magnesium(2+) `CHEBI:18420`	UniProtKB:P40191 Source assertion: UniProt lists CHEBI:18420 as a cofactor of UniProtKB:P40191 (evidence: ECO:0000269). Can use both zinc and magnesium that is complexed with ATP. However, magnesium seems to be the preferred metal used under physiological conditions. Source location `comments[commentType='COFACTOR'].cofactors and note`
Pyridoxal kinase PdxY `UniProtKB:P77150`	enables	pyridoxal kinase reaction `RHEA:10225`	UniProtKB:P77150 Source assertion: UniProt annotates UniProtKB:P77150 with catalytic activity for the reaction family of RHEA:10225. Annotation evidence: ECO:0000269; organism taxon: NCBITaxon:83333. Source location `comments[commentType='CATALYTIC ACTIVITY'].reaction.reactionCrossReferences`
Pyridoxal kinase PdxY `UniProtKB:P77150`	has_cofactor	magnesium(2+) `CHEBI:18420`	UniProtKB:P77150 Source assertion: UniProt lists CHEBI:18420 as a cofactor of UniProtKB:P77150 (evidence: ECO:0000255). Source location `comments[commentType='COFACTOR'].cofactors and note`

References

MetaCyc:PLPSAL-PWY MetaCyc pyridoxal 5'-phosphate salvage I pathway (source version: 22.5)
RHEA:10224 Rhea pyridoxal kinase reaction (source version: 139)
RHEA:10225 Rhea pyridoxal 5'-phosphate-forming direction (source version: 139)
RHEA:25104 Rhea pyridoxamine kinase reaction (source version: 139)
RHEA:25105 Rhea pyridoxamine 5'-phosphate-forming direction (source version: 139)
RHEA:15817 Rhea pyridoxamine 5'-phosphate oxidase reaction (source version: 139)
RHEA:15818 Rhea pyridoxal 5'-phosphate-forming pyridoxamine oxidase direction (source version: 139)
RHEA:25108 Rhea pyridoxine kinase reaction (source version: 139)
RHEA:25109 Rhea pyridoxine 5'-phosphate-forming direction (source version: 139)
RHEA:15149 Rhea pyridoxine 5'-phosphate oxidase reaction (source version: 139)
RHEA:15150 Rhea pyridoxal 5'-phosphate-forming pyridoxine oxidase direction (source version: 139)
UniProtKB:P0AFI7 UniProtKB:P0AFI7 authority record (source version: 2026_03)
UniProtKB:P40191 UniProtKB:P40191 authority record (source version: 2026_03)
UniProtKB:P77150 UniProtKB:P77150 authority record (source version: 2026_03)

Curation history

2026-10-05T06:25:52Z codex
- EDIT — Review causal chemistry and add sourced molecular context
  Reviewed the entire record against MetaCyc 22.5 native pathway XML (including nested pathways), Rhea 139 explicit sides and directions, ENZYME 02-Sep-2026, PubMed records, and reviewed UniProt 2026_03 annotations within the record's taxon scope. Replaced generated structured-source quotations with source_assertion and source_locator. Typed molecular activities and participants. Reaction count 5 to 5; 0 directed-ID corrections; 3 protein annotations, 4 cofactor annotations and 0 sourced locations. All Rhea reaction substrate/product sets checked against independent Rhea authority; native pathway leaf coverage and source exceptions recorded in reports/causal_graph_review/metacyc-review.json. Full source URLs, versions and byte hashes are in metacyc-sources.json. All 50 MetaCyc records passed native schema validation; six targeted chemistry/evidence regression tests passed. Missing protein or cofactor annotations are not treated as biological absence; qualifications and exclusions are preserved in the ledger.
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