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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
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PKHD1
PKHD1 ciliary IPT domain containing fibrocystin/polyductin
Chromosome 6 Β· 6p12.3-p12.2
NCBI Gene: 5314Ensembl: ENSG00000170927.15HGNC: HGNC:9016UniProt: P08F94
101PubMed Papers
21Diseases
0Drugs
1,563Pathogenic Variants
FUNCTIONAL ROLE
Receptor
RESEARCH IMPACT
Variant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
regulation of ERK1 and ERK2 cascaderegulation of centrosome duplicationmitotic spindleprotein bindingautosomal recessive polycystic kidney diseasepolycystic kidney disease 4Polycystic Kidney DiseaseMeckel syndrome
✦AI Summary

PKHD1 encodes fibrocystin/polyductin, a large transmembrane protein essential for kidney and liver development. The protein promotes ciliogenesis in renal epithelial cells and regulates tubule formation and luminal architecture maintenance. PKHD1 functions in epithelial morphogenesis by controlling bipolar cell division through centrosome regulation and mitotic spindle assembly, while maintaining oriented cell division via the planar cell polarity pathway 1. It regulates cell-cell adhesion and participates in cholangiocyte proliferation, with potential involvement in collecting-duct and biliary differentiation. Biallelic PKHD1 mutations cause autosomal recessive polycystic kidney disease (ARPKD), characterized by fibrocystic kidney changes, congenital hepatic fibrosis, and variable clinical presentation 2. Disease severity correlates with mutation type and affected protein regions; biallelic null variants cause the most severe phenotypes, while missense variants produce milder presentations 1. The condition typically manifests in early childhood but can present in adulthood with hepatic predominance 3. ARPKD leads to progressive chr6 kidney failure (mean onset age 4 years) and portal hypertension in approximately 44% of patients 4. Organoid studies reveal that PKHD1 mutations increase TGFΞ² pathway activation in cholangiocytes, driving hepatic fibrosis through myofibroblast activation and collagen production 5. Molecular diagnosis through PKHD1 sequencing is crucial for clinical management and prognostic counseling.

Sources cited
1
PKHD1 protein regions determine ARPKD phenotype severity; biallelic null variants cause severe disease; missense variants in specific regions correlate with better renal/hepatic outcomes
PMID: 33940108
2
ARPKD is an early-onset polycystic kidney disease caused by PKHD1 mutations, presenting with enlarged cystic kidneys, liver involvement, and congenital hepatic fibrosis
PMID: 38097335
3
PKHD1 is the major locus for autosomal recessive polycystic kidney disease; defects in primary cilia function are central to pathogenesis
PMID: 38097330
4
PKHD1 encodes a 4074 amino acid protein called fibrocystin/polyductin; mutations cause ARPKD and congenital hepatic fibrosis with variable phenotypes
PMID: 19914852
5
ARPKD patients show chronic renal failure onset at mean age 4 years; 44% develop congenital hepatic fibrosis and portal hypertension; biallelic truncating mutations are incompatible with neonatal survival
PMID: 15698423
6
PKHD1 mutations increase TGFΞ² pathway activation in cholangiocytes, stimulating myofibroblasts to produce collagen and cause hepatic fibrosis
PMID: 34686668
7
Two truncating PKHD1 mutations are associated with perinatal death; surviving patients have at least one missense mutation
PMID: 19940839
8
PKHD1 is the most frequently mutated recessive gene in polycystic kidney disease; truncating variants associate with more severe phenotype
PMID: 37372416
Disease Associationsβ“˜21
autosomal recessive polycystic kidney diseaseOpen Targets
0.78Strong
polycystic kidney disease 4Open Targets
0.77Strong
Polycystic Kidney DiseaseOpen Targets
0.65Moderate
Meckel syndromeOpen Targets
0.56Moderate
Isolated polycystic liver diseaseOpen Targets
0.55Moderate
autosomal dominant polycystic liver diseaseOpen Targets
0.54Moderate
genetic disorderOpen Targets
0.53Moderate
Caroli DiseaseOpen Targets
0.51Moderate
Renal cystOpen Targets
0.51Moderate
Biliary tract abnormalityOpen Targets
0.51Moderate
AnhydramniosOpen Targets
0.49Moderate
open-angle glaucomaOpen Targets
0.49Moderate
Enlarged kidneyOpen Targets
0.48Moderate
Hyperechogenic kidneysOpen Targets
0.48Moderate
Multiple renal cystsOpen Targets
0.47Moderate
Abnormality of the skeletal systemOpen Targets
0.47Moderate
disease of genitourinary systemOpen Targets
0.46Moderate
familial cystic renal diseaseOpen Targets
0.46Moderate
glaucomaOpen Targets
0.46Moderate
Autosomal dominant polycystic kidney diseaseOpen Targets
0.44Moderate
Polycystic kidney disease 4, with or without polycystic liver diseaseUniProt
Pathogenic Variants1,563
NM_138694.4(PKHD1):c.9319C>T (p.Arg3107Ter)Pathogenic
Autosomal recessive polycystic kidney disease|not provided|Polycystic kidney disease 4|PKHD1-related disorder
β˜…β˜…β˜†β˜†2026β†’ Residue 3107
NM_138694.4(PKHD1):c.9719G>A (p.Arg3240Gln)Pathogenic
Autosomal recessive polycystic kidney disease|Polycystic kidney disease 4
β˜…β˜…β˜†β˜†2026β†’ Residue 3240
NM_138694.4(PKHD1):c.977-1G>APathogenic
Autosomal recessive polycystic kidney disease
β˜…β˜…β˜†β˜†2026
NM_138694.4(PKHD1):c.6437_6440del (p.Thr2146fs)Pathogenic
Autosomal recessive polycystic kidney disease|Polycystic kidney disease 4
β˜…β˜…β˜†β˜†2026β†’ Residue 2146
NM_138694.4(PKHD1):c.977-2A>GPathogenic
Polycystic kidney disease 4|Autosomal recessive polycystic kidney disease
β˜…β˜…β˜†β˜†2026
NM_138694.4(PKHD1):c.8870T>C (p.Ile2957Thr)Pathogenic
Autosomal recessive polycystic kidney disease|not provided|Polycystic kidney disease|Polycystic kidney disease 4|PKHD1-related disorder|Biliary tract abnormality
β˜…β˜…β˜†β˜†2026β†’ Residue 2957
NM_138694.4(PKHD1):c.8837del (p.Leu2946fs)Pathogenic
Autosomal recessive polycystic kidney disease
β˜…β˜…β˜†β˜†2026β†’ Residue 2946
NM_138694.4(PKHD1):c.3098-2A>TLikely pathogenic
Autosomal recessive polycystic kidney disease
β˜…β˜…β˜†β˜†2026
NM_138694.4(PKHD1):c.5879_5880del (p.Thr1960fs)Pathogenic
not provided|Autosomal recessive polycystic kidney disease|Polycystic kidney disease 4
β˜…β˜…β˜†β˜†2026β†’ Residue 1960
NM_138694.4(PKHD1):c.6383del (p.Ile2127_Leu2128insTer)Pathogenic
Autosomal recessive polycystic kidney disease|Polycystic kidney disease 4
β˜…β˜…β˜†β˜†2026β†’ Residue 2127
NM_138694.4(PKHD1):c.8162del (p.Pro2721fs)Pathogenic
Polycystic kidney disease 4|Autosomal recessive polycystic kidney disease
β˜…β˜…β˜†β˜†2026β†’ Residue 2721
NM_138694.4(PKHD1):c.7964A>G (p.His2655Arg)Pathogenic
Autosomal recessive polycystic kidney disease
β˜…β˜…β˜†β˜†2026β†’ Residue 2655
NM_138694.4(PKHD1):c.664A>G (p.Ile222Val)Pathogenic
Autosomal recessive polycystic kidney disease|not provided|Polycystic kidney disease 4|See cases|PKHD1-related disorder|Biliary tract abnormality
β˜…β˜…β˜†β˜†2026β†’ Residue 222
NM_138694.4(PKHD1):c.667G>A (p.Gly223Ser)Pathogenic
Autosomal recessive polycystic kidney disease|not provided|Polycystic kidney disease 4
β˜…β˜…β˜†β˜†2026β†’ Residue 223
NM_138694.4(PKHD1):c.2257G>T (p.Glu753Ter)Pathogenic
Autosomal recessive polycystic kidney disease|Polycystic kidney disease 4
β˜…β˜…β˜†β˜†2026β†’ Residue 753
NM_138694.4(PKHD1):c.7350+653A>GPathogenic
Autosomal recessive polycystic kidney disease|Polycystic kidney disease 4|not provided
β˜…β˜…β˜†β˜†2026
NM_138694.4(PKHD1):c.10219C>T (p.Gln3407Ter)Pathogenic
not provided|Autosomal dominant polycystic liver disease|Autosomal recessive polycystic kidney disease|Polycystic kidney disease 4
β˜…β˜…β˜†β˜†2026β†’ Residue 3407
NM_138694.4(PKHD1):c.9689del (p.Asp3230fs)Pathogenic
Autosomal recessive polycystic kidney disease|not provided|Polycystic kidney disease 4|PKHD1-related disorder
β˜…β˜…β˜†β˜†2026β†’ Residue 3230
NM_138694.4(PKHD1):c.5935G>A (p.Gly1979Arg)Pathogenic
Polycystic kidney disease|Autosomal recessive polycystic kidney disease|Polycystic kidney disease 4|not provided
β˜…β˜…β˜†β˜†2026β†’ Residue 1979
NM_138694.4(PKHD1):c.8068T>C (p.Trp2690Arg)Pathogenic
Autosomal recessive polycystic kidney disease|not provided|Polycystic kidney disease 4|PKHD1-related disorder|Inborn genetic diseases
β˜…β˜…β˜†β˜†2026β†’ Residue 2690
View on ClinVar β†—
Related Genes
NPHP3Protein interaction99%NPHP1Protein interaction98%PKD1Protein interaction98%PKD2Protein interaction98%HNF1BProtein interaction85%UMODProtein interaction85%
Tissue Expression6 tissues
Liver
100%
Lung
1%
Bone Marrow
0%
Ovary
0%
Brain
0%
Heart
0%
Gene Interaction Network
Click a node to explore
PKHD1NPHP3NPHP1PKD1PKD2HNF1BUMOD
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt P08F94
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
0.78LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.70 [0.62–0.78]
RankingsWhere PKHD1 stands among ~20K protein-coding genes
  • #4,735of 20,598
    Most Researched101 Β· top quartile
  • #17of 5,498
    Most Pathogenic Variants1,563 Β· top 1%
  • #6,419of 17,882
    Most Constrained (LOEUF)0.78
Genes detectedPKHD1
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Refining genotype-phenotype correlations in 304 patients with autosomal recessive polycystic kidney disease and PKHD1 gene variants.
PMID: 33940108
Kidney Int Β· 2021
1.00
2
Autosomal Recessive Polycystic Kidney Disease: Diagnosis, Prognosis, and Management.
PMID: 38097335
Adv Kidney Dis Health Β· 2023
0.90
3
Genetic Spectrum of Polycystic Kidney and Liver Diseases and the Resulting Phenotypes.
PMID: 38097330
Adv Kidney Dis Health Β· 2023
0.80
4
A human multi-lineage hepatic organoid model for liver fibrosis.
PMID: 34686668
Nat Commun Β· 2021
0.70
5
PKHD1 sequence variations in 78 children and adults with autosomal recessive polycystic kidney disease and congenital hepatic fibrosis.
PMID: 19914852
Mol Genet Metab Β· 2010
0.60