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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 15 days ago
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PHYH
phytanoyl-CoA 2-hydroxylase
Chromosome 10 Β· 10p13
NCBI Gene: 5264Ensembl: ENSG00000107537.15HGNC: HGNC:8940UniProt: O14832
54PubMed Papers
21Diseases
0Drugs
71Pathogenic Variants
RESEARCH IMPACT
Variant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
peroxisomeferrous iron bindingmethyl-branched fatty acid metabolic process9+0 non-motile ciliumRefsum diseaseadult Refsum diseaseRetinal dystrophyretinitis pigmentosa
✦AI Summary

PHYH (phytanoyl-CoA 2-hydroxylase) is a peroxisomal Fe(II) and 2-oxoglutarate-dependent oxygenase that catalyzes the critical first step of phytanic acid alpha-oxidation 1. The enzyme hydroxylates phytanoyl-CoA and various mono-branched 3-methylacyl-CoA esters with chain lengths β‰₯7 carbons, but lacks activity toward long-chain straight-chain acyl-CoAs or 2/4-methyl-branched variants 23. This selectivity enables metabolism of phytanic acid, an epimeric branched-chain fatty acid from chlorophyll that cannot undergo beta-oxidation, converting it to pristanic acid for subsequent degradation 1. Phytanoyl-CoA 2-hydroxylase mutations cause adult Refsum disease (ARD), a neurological disorder characterized by phytanic acid accumulation in plasma and tissues 14. The PHYH gene spans ~21 kb with nine exons; disease-causing mutations cluster around Fe(II)- and 2-oxoglutarate-binding sites and universally ablate enzymatic activity 41. Notably, Refsum disease shows genetic heterogeneity, as mutations in the peroxisomal targeting receptor PEX7 also cause the disease 5. Beyond lipid metabolism, PHYH expression may influence broader metabolic pathways. In renal cell carcinoma, PHYH expression correlates with survival outcomes and associates with PPAR signaling and pyruvate metabolism 6. Recent characterization of the PHYH c.678+5G>T variant identified in-frame exon skipping associated with attenuated Refsum disease phenotypes 7.

Sources cited
1
PHYH is an Fe(II) and 2-oxoglutarate oxygenase catalyzing phytanoyl-CoA hydroxylation; mutations cause phytanic acid accumulation and adult Refsum disease
PMID: 17956235
2
PHYH substrate specificity includes mono-branched 3-methylacyl-CoAs and straight-chain acyl-CoAs, but excludes long-chain straight-chain and 2/4-methyl-branched variants
PMID: 10744784
3
PHYH does not hydroxylate long/very long straight-chain acyl-CoAs or 2/4-methyl-branched acyl-CoAs
PMID: 12923223
4
PHYH catalyzes the first step of phytanic acid alpha-oxidation in peroxisomes; mutations cause Refsum disease with phytanic acid accumulation; gene structure is ~21 kb with 9 exons
PMID: 10767344
5
Refsum disease is genetically heterogeneous; mutations in both PHYH and PEX7 cause the disorder
PMID: 14974078
6
PHYH expression correlates with survival outcomes and associates with PPAR signaling and metabolic pathways in renal cell carcinoma
PMID: 33468235
7
PHYH c.678+5G>T causes in-frame exon skipping and is associated with attenuated Refsum disease phenotypes
PMID: 38411969
Disease Associationsβ“˜21
Refsum diseaseOpen Targets
0.83Strong
adult Refsum diseaseOpen Targets
0.77Strong
Retinal dystrophyOpen Targets
0.50Moderate
retinitis pigmentosaOpen Targets
0.46Moderate
genetic disorderOpen Targets
0.41Moderate
phytanoyl-CoA hydroxylase deficiencyOpen Targets
0.40Weak
eye diseaseOpen Targets
0.37Weak
orofacial cleftOpen Targets
0.32Weak
alcohol drinkingOpen Targets
0.30Weak
Vibrio infectious diseaseOpen Targets
0.27Weak
glomerulonephritisOpen Targets
0.27Weak
primary thrombocytopeniaOpen Targets
0.17Weak
neurodegenerative diseaseOpen Targets
0.16Weak
optic atrophyOpen Targets
0.11Weak
nonpapillary renal cell carcinomaOpen Targets
0.06Suggestive
neonatal intrahepatic cholestasis due to citrin deficiencyOpen Targets
0.04Suggestive
infectionOpen Targets
0.04Suggestive
Ataxia with vitamin E deficiencyOpen Targets
0.03Suggestive
familial isolated deficiency of vitamin EOpen Targets
0.03Suggestive
Spinocerebellar ataxia type 1 with axonal neuropathyOpen Targets
0.03Suggestive
Refsum diseaseUniProt
Pathogenic Variants71
NM_006214.4(PHYH):c.823C>T (p.Arg275Trp)Pathogenic
REFSUM DISEASE, ADULT, 1|not provided|Retinitis pigmentosa|Phytanic acid storage disease|Inborn genetic diseases
β˜…β˜…β˜†β˜†2026β†’ Residue 275
NM_006214.4(PHYH):c.135-2A>GPathogenic
REFSUM DISEASE, ADULT, 1|not provided|Phytanic acid storage disease|Retinitis pigmentosa|PHYH-related disorder|Retinal dystrophy|Uterine corpus endometrial carcinoma|Clear cell carcinoma of kidney|Thyroid cancer, nonmedullary, 1|Acute myeloid leukemia|Familial cancer of breast
β˜…β˜…β˜†β˜†2025
NM_006214.4(PHYH):c.135-1G>CPathogenic
Refsum syndrome|not provided|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2025
NM_006214.4(PHYH):c.497-2A>GPathogenic
not provided|Retinal dystrophy|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2025
NM_006214.4(PHYH):c.610G>A (p.Gly204Ser)Likely pathogenic
REFSUM DISEASE, ADULT, 1|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2025β†’ Residue 204
NM_006214.4(PHYH):c.824G>A (p.Arg275Gln)Pathogenic
REFSUM DISEASE, ADULT, 1|not provided|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2024β†’ Residue 275
NM_006214.4(PHYH):c.830C>A (p.Ala277Glu)Pathogenic
not provided|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2024β†’ Residue 277
NM_006214.4(PHYH):c.675G>A (p.Trp225Ter)Pathogenic
not provided|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2024β†’ Residue 225
NM_006214.4(PHYH):c.426del (p.Lys141_Tyr142insTer)Pathogenic
Phytanic acid storage disease|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 141
NM_006214.4(PHYH):c.679-1dupPathogenic
not provided|Phytanic acid storage disease|Retinal dystrophy
β˜…β˜…β˜†β˜†2024
NM_006214.4(PHYH):c.134+1G>ALikely pathogenic
not provided|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2024
NM_006214.4(PHYH):c.42_60dup (p.Ser21fs)Pathogenic
not provided|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2024β†’ Residue 21
NM_006214.4(PHYH):c.811del (p.Thr271fs)Pathogenic
Phytanic acid storage disease|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 271
NM_006214.4(PHYH):c.75+1G>TLikely pathogenic
not provided|PHYH-related disorder
β˜…β˜…β˜†β˜†2023
NM_006214.4(PHYH):c.678+2T>CLikely pathogenic
not provided|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2023
NM_006214.4(PHYH):c.457del (p.Ala153fs)Pathogenic
not provided|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2023β†’ Residue 153
NM_006214.4(PHYH):c.375_376del (p.Glu126fs)Pathogenic
not provided|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2023β†’ Residue 126
NM_006214.4(PHYH):c.497-1G>ALikely pathogenic
not provided|Phytanic acid storage disease|Hepatocellular carcinoma
β˜…β˜…β˜†β˜†2023
NM_006214.4(PHYH):c.520dup (p.Leu174fs)Pathogenic
not provided|Phytanic acid storage disease
β˜…β˜…β˜†β˜†2023β†’ Residue 174
NM_006214.4(PHYH):c.817G>T (p.Gly273Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 273
View on ClinVar β†—
Related Genes
PHYHIPProtein interaction99%GLMNProtein interaction98%PEX7Protein interaction98%PEX5Protein interaction94%AGPSProtein interaction88%TYSND1Protein interaction85%
Tissue Expression6 tissues
Liver
100%
Heart
67%
Brain
20%
Ovary
14%
Lung
10%
Bone Marrow
3%
Gene Interaction Network
Click a node to explore
PHYHPHYHIPGLMNPEX7PEX5AGPSTYSND1
PROTEIN STRUCTURE
Preparing viewer…
PDB2A1X Β· 2.50 Γ… Β· X-ray
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
1.15LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.80 [0.56–1.15]
RankingsWhere PHYH stands among ~20K protein-coding genes
  • #8,354of 20,598
    Most Researched54
  • #1,030of 5,498
    Most Pathogenic Variants71 Β· top quartile
  • #11,931of 17,882
    Most Constrained (LOEUF)1.15
Genes detectedPHYH
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Structural and mechanistic studies on the peroxisomal oxygenase phytanoyl-CoA 2-hydroxylase (PhyH).
PMID: 17956235
Biochem Soc Trans Β· 2007
1.00
2
Human phytanoyl-CoA hydroxylase: resolution of the gene structure and the molecular basis of Refsum's disease.
PMID: 10767344
Hum Mol Genet Β· 2000
0.90
3
Molecular basis of Refsum disease: sequence variations in phytanoyl-CoA hydroxylase (PHYH) and the PTS2 receptor (PEX7).
PMID: 14974078
Hum Mutat Β· 2004
0.80
4
Prognostic role of PHYH for overall survival (OS) in clear cell renal cell carcinoma (ccRCC).
PMID: 33468235
Eur J Med Res Β· 2021
0.70
5
[Refsum disease].
PMID: 11347087
Nihon Rinsho Β· 2001
0.60