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10 sources retrieved · Most recent: April 2026 · Index updated 15 days ago
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PCDHA4
protocadherin alpha 4
Chromosome 5 · 5q31.3
NCBI Gene: 56144Ensembl: ENSG00000204967.13HGNC: HGNC:8670UniProt: Q59H34
20PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
plasma membraneprotein bindingidentical protein bindingcell adhesion molecule bindingThrombocytosisprostate cancerFamilial prostate canceressential tremor
✦AI Summary

PCDHA4 (protocadherin alpha 4) is a calcium-dependent cell adhesion molecule that functions as a synaptic cadherin involved in neuronal recognition and connection specificity 1. The protein undergoes presenilin-dependent intramembrane proteolysis following matrix metalloprotease cleavage, generating cytoplasmic fragments that may participate in intracellular signaling 2. PCDHA4 can form heteromers with gamma-protocadherins, which alters their processing susceptibility and potentially modulates synaptic adhesive properties 2. The gene is part of a clustered protocadherin family with a unique genomic organization featuring variable and constant region exons 3. Disease relevance includes its identification as a tumor suppressor in metastatic rhabdomyosarcoma, where DNA hypermethylation silences PCDHA4 expression and correlates with increased cell proliferation and invasiveness 4. PCDHA4 methylation also serves as a diagnostic marker for cervical cancer progression 5. Additionally, hippocampal PCDHA4 expression shows significant association with Alzheimer's disease risk through transcriptome-wide association studies 6, and the gene is implicated in amblyopia susceptibility 7. These findings suggest PCDHA4 plays critical roles in both normal neurodevelopment and various pathological conditions.

Sources cited
1
PCDHA4 functions as a synaptic cadherin involved in neuronal receptor signaling
PMID: 11672833
2
PCDHA4 undergoes presenilin-dependent processing and forms heteromers with gamma-protocadherins
PMID: 17403907
3
PCDHA4 is part of a clustered gene family with variable and constant exon organization
PMID: 15028293
4
PCDHA4 acts as a tumor suppressor in rhabdomyosarcoma when hypermethylated
PMID: 27842508
5
PCDHA4 methylation serves as a diagnostic marker for cervical cancer
PMID: 25418975
6
Hippocampal PCDHA4 expression is associated with Alzheimer's disease risk
PMID: 33630843
7
PCDHA4 is implicated in amblyopia susceptibility through rare variant association
PMID: 39842729
Disease Associationsⓘ20
ThrombocytosisOpen Targets
0.12Weak
Familial prostate cancerOpen Targets
0.11Weak
prostate cancerOpen Targets
0.11Weak
essential tremorOpen Targets
0.08Suggestive
major depressive disorderOpen Targets
0.07Suggestive
schizophreniaOpen Targets
0.06Suggestive
ocular hypotensionOpen Targets
0.03Suggestive
intelligenceOpen Targets
0.03Suggestive
neoplasmOpen Targets
0.03Suggestive
cervical carcinomaOpen Targets
0.02Suggestive
metastatic neoplasmOpen Targets
0.02Suggestive
alveolar rhabdomyosarcomaOpen Targets
0.01Suggestive
cancerOpen Targets
0.01Suggestive
cervical cancerOpen Targets
0.01Suggestive
Alzheimer diseaseOpen Targets
0.01Suggestive
embryonal rhabdomyosarcomaOpen Targets
0.01Suggestive
in situ carcinomaOpen Targets
0.01Suggestive
amblyopiaOpen Targets
0.00Suggestive
Parkinson diseaseOpen Targets
0.00Suggestive
squamous cell carcinomaOpen Targets
0.00Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
PCDHGA8Shared pathway100%PCDHGA12Shared pathway100%PCDHB1Shared pathway100%PCDHGB7Shared pathway100%PCDHGB6Shared pathway100%PCDHGB5Shared pathway100%
Tissue Expression6 tissues
Brain
100%
Ovary
7%
Lung
6%
Liver
4%
Heart
1%
Bone Marrow
0%
Gene Interaction Network
Click a node to explore
PCDHA4PCDHGA8PCDHGA12PCDHB1PCDHGB7PCDHGB6PCDHGB5
PROTEIN STRUCTURE
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AlphaFoldAI-predicted · UniProt Q59H34
View on AlphaFold ↗
Constraintⓘ
LOEUFⓘ
0.98LoF Tolerant
pLIⓘ
0.00Tolerant
Observed/Expected LoF0.77 [0.61–0.98]
RankingsWhere PCDHA4 stands among ~20K protein-coding genes
  • #14,217of 20,598
    Most Researched20
  • #9,295of 17,882
    Most Constrained (LOEUF)0.98
Genes detectedPCDHA4
Sources retrieved10 papers
Response time—
📄 Sources
10▼
1
Genome-Wide and Rare Variant Association Studies of Amblyopia in the All of Us Research Program.
PMID: 39842729
Ophthalmology · 2025
1.00
2
Global methylation silencing of clustered proto-cadherin genes in cervical cancer: serving as diagnostic markers comparable to HPV.
PMID: 25418975
Cancer Med · 2015
0.90
3
Global DNA methylation profiling uncovers distinct methylation patterns of protocadherin alpha4 in metastatic and non-metastatic rhabdomyosarcoma.
PMID: 27842508
BMC Cancer · 2016
0.80
4
Hippocampal transcriptome-wide association study and neurobiological pathway analysis for Alzheimer's disease.
PMID: 33630843
PLoS Genet · 2021
0.70
5
miR-218-5p and miR-320a-5p as Biomarkers for Brain Disorders: Focus on the Major Depressive Disorder and Parkinson's Disease.
PMID: 37329382
Mol Neurobiol · 2023
0.60