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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
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PNPO
pyridoxamine 5'-phosphate oxidase
Chromosome 17 Β· 17q21.32
NCBI Gene: 55163Ensembl: ENSG00000108439.12HGNC: HGNC:30260UniProt: Q9NVS9
54PubMed Papers
21Diseases
0Drugs
42Pathogenic Variants
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
FMN bindingmitochondrionpyridoxal 5'-phosphate biosynthetic processprotein bindingpyridoxal phosphate-responsive seizuresgenetic disorderneuronopathy, distal hereditary motor, type 5ASeizure
✦AI Summary

PNPO (pyridoxamine 5'-phosphate oxidase) catalyzes the rate-limiting oxidation of pyridoxine 5'-phosphate (PNP) or pyridoxamine 5'-phosphate (PMP) into pyridoxal 5'-phosphate (PLP), the active form of vitamin B6 1. PLP serves as an essential cofactor for enzymes involved in amino acid metabolism, neurotransmitter synthesis (including GABA), folate metabolism, and mitochondrial function 2. PNPO deficiency causes B6-responsive epilepsy, typically presenting as neonatal-onset seizures that are often resistant to pyridoxine but respond to PLP supplementation 23. The clinical spectrum varies with specific mutations, with some patients responding to pyridoxine while others require PLP 4. Disease phenotypes range from neonatal epileptic encephalopathy to later-onset seizures, with treatment response influenced by genotype, prematurity, and maternal B6 status 4. Beyond its metabolic role, recent studies suggest PNPO may have oncogenic functions, being overexpressed in multiple cancers and promoting tumor growth through autophagy regulation 56. PLP remains the primary treatment for most PNPO-deficient patients, though liver toxicity monitoring is recommended due to potential adverse effects at therapeutic doses 7.

Sources cited
1
PNPO catalyzes the rate-limiting step in PLP synthesis and its mutations cause epilepsy
PMID: 35217610
2
PLP functions as cofactor for amino acid metabolism, neurotransmitter synthesis, and other cellular processes
PMID: 30671974
3
PNPO deficiency causes B6-responsive neonatal seizures resistant to pyridoxine
PMID: 19760909
4
Clinical spectrum varies with mutations and environmental factors affecting treatment response
PMID: 24645144
5
PNPO is overexpressed in ovarian cancer and promotes tumor growth via autophagy
PMID: 38615082
6
PNPO shows oncogenic roles across multiple cancer types
PMID: 35127701
7
PLP is effective treatment but requires liver toxicity monitoring
PMID: 40751583
Disease Associationsβ“˜21
pyridoxal phosphate-responsive seizuresOpen Targets
0.81Strong
genetic disorderOpen Targets
0.48Moderate
neuronopathy, distal hereditary motor, type 5AOpen Targets
0.34Weak
SeizureOpen Targets
0.33Weak
fetal growth restrictionOpen Targets
0.33Weak
Growth delayOpen Targets
0.33Weak
IMAGe syndromeOpen Targets
0.33Weak
Global developmental delayOpen Targets
0.19Weak
type 1 diabetes mellitusOpen Targets
0.11Weak
neoplasmOpen Targets
0.09Suggestive
cancerOpen Targets
0.08Suggestive
Miyoshi myopathyOpen Targets
0.07Suggestive
COVID-19Open Targets
0.07Suggestive
hair colorOpen Targets
0.06Suggestive
breast cancerOpen Targets
0.05Suggestive
rheumatoid arthritisOpen Targets
0.04Suggestive
hyperinsulinemic hypoglycemia, familial, 4Open Targets
0.03Suggestive
epilepsyOpen Targets
0.03Suggestive
Abnormality of the skeletal systemOpen Targets
0.03Suggestive
metabolic syndromeOpen Targets
0.02Suggestive
Pyridoxine-5'-phosphate oxidase deficiencyUniProt
Pathogenic Variants42
NM_018129.4(PNPO):c.283C>T (p.Arg95Cys)Pathogenic
Pyridoxal phosphate-responsive seizures|Seizure
β˜…β˜…β˜†β˜†2026β†’ Residue 95
NM_018129.4(PNPO):c.673C>T (p.Arg225Cys)Pathogenic
not provided|Pyridoxal phosphate-responsive seizures|PNPO-related disorder
β˜…β˜…β˜†β˜†2026β†’ Residue 225
NM_018129.4(PNPO):c.481C>T (p.Arg161Cys)Pathogenic
not provided|Pyridoxal phosphate-responsive seizures
β˜…β˜…β˜†β˜†2026β†’ Residue 161
NM_018129.4(PNPO):c.98A>T (p.Asp33Val)Pathogenic
not provided|Pyridoxal phosphate-responsive seizures|Inborn genetic diseases
β˜…β˜…β˜†β˜†2025β†’ Residue 33
NM_018129.4(PNPO):c.284G>A (p.Arg95His)Pathogenic
Pyridoxal phosphate-responsive seizures
β˜…β˜…β˜†β˜†2025β†’ Residue 95
NM_018129.4(PNPO):c.685C>T (p.Arg229Trp)Pathogenic
Pyridoxal phosphate-responsive seizures|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 229
NM_018129.4(PNPO):c.399G>A (p.Trp133Ter)Pathogenic
not provided|Pyridoxal phosphate-responsive seizures|Inborn genetic diseases
β˜…β˜…β˜†β˜†2025β†’ Residue 133
NM_018129.4(PNPO):c.421C>T (p.Arg141Cys)Pathogenic
Pyridoxal phosphate-responsive seizures
β˜…β˜…β˜†β˜†2025β†’ Residue 141
NM_018129.4(PNPO):c.657G>A (p.Trp219Ter)Pathogenic
Pyridoxal phosphate-responsive seizures|Inborn genetic diseases|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 219
NM_018129.4(PNPO):c.471C>A (p.Tyr157Ter)Pathogenic
not provided|Pyridoxal phosphate-responsive seizures
β˜…β˜…β˜†β˜†2025β†’ Residue 157
NM_018129.4(PNPO):c.686G>A (p.Arg229Gln)Pathogenic
not provided|Pyridoxal phosphate-responsive seizures|PNPO-related disorder
β˜…β˜…β˜†β˜†2025β†’ Residue 229
NM_018129.4(PNPO):c.674G>A (p.Arg225His)Pathogenic
Pyridoxal phosphate-responsive seizures|Seizure;Fetal growth restriction;Growth delay|Neuronopathy, distal hereditary motor, type 5A|not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 225
NM_018129.4(PNPO):c.363+5G>ALikely pathogenic
Pyridoxal phosphate-responsive seizures
β˜…β˜…β˜†β˜†2024
NM_018129.4(PNPO):c.674G>T (p.Arg225Leu)Pathogenic
not provided|Pyridoxal phosphate-responsive seizures
β˜…β˜…β˜†β˜†2024β†’ Residue 225
NM_018129.4(PNPO):c.246del (p.Leu83fs)Pathogenic
Pyridoxal phosphate-responsive seizures
β˜…β˜…β˜†β˜†2024β†’ Residue 83
NM_018129.4(PNPO):c.448_451del (p.Pro150fs)Pathogenic
not provided|Pyridoxal phosphate-responsive seizures
β˜…β˜…β˜†β˜†2024β†’ Residue 150
NM_018129.4(PNPO):c.264-2A>GLikely pathogenic
Pyridoxal phosphate-responsive seizures|not provided
β˜…β˜…β˜†β˜†2023
NM_018129.4(PNPO):c.178A>T (p.Lys60Ter)Pathogenic
Pyridoxal phosphate-responsive seizures
β˜…β˜…β˜†β˜†2022β†’ Residue 60
NM_018129.4(PNPO):c.364-1G>APathogenic
Pyridoxal phosphate-responsive seizures
β˜…β˜…β˜†β˜†2020
NM_018129.4(PNPO):c.547-2A>TLikely pathogenic
Pyridoxal phosphate-responsive seizures
β˜…β˜†β˜†β˜†2025
View on ClinVar β†—
Related Genes
AOX1Protein interaction100%PLPBPProtein interaction100%PDXKProtein interaction96%PDXPProtein interaction96%NAXEProtein interaction93%YJEFN3Protein interaction90%
Tissue Expression6 tissues
Liver
100%
Heart
34%
Brain
33%
Lung
15%
Ovary
12%
Bone Marrow
7%
Gene Interaction Network
Click a node to explore
PNPOAOX1PLPBPPDXKPDXPNAXEYJEFN3
PROTEIN STRUCTURE
Preparing viewer…
PDB8ROS Β· 1.55 Γ… Β· X-ray
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
1.48LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF1.10 [0.83–1.48]
RankingsWhere PNPO stands among ~20K protein-coding genes
  • #8,358of 20,598
    Most Researched54
  • #1,492of 5,498
    Most Pathogenic Variants42
  • #15,055of 17,882
    Most Constrained (LOEUF)1.48
Genes detectedPNPO
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Disorders affecting vitamin B
PMID: 30671974
J Inherit Metab Dis Β· 2019
1.00
2
PNPO-Mediated Oxidation of DVL3 Promotes Multiple Myeloma Malignancy and Osteoclastogenesis by Activating the Wnt/Ξ²-Catenin Pathway.
PMID: 39656865
Adv Sci (Weinh) Β· 2025
0.90
3
Targeting PNPO to suppress tumor growth via inhibiting autophagic flux and to reverse paclitaxel resistance in ovarian cancer.
PMID: 38615082
Apoptosis Β· 2024
0.80
4
PMID: 35217610
Proc Natl Acad Sci U S A Β· 2022
0.70
5
Vitamin B6 dependent seizures.
PMID: 19760909
Can J Neurol Sci Β· 2009
0.60