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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 15 days ago
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DENND5A
DENN domain containing 5A
Chromosome 11 Β· 11p15.4
NCBI Gene: 23258Ensembl: ENSG00000184014.10HGNC: HGNC:19344UniProt: A0A7P0Z4N9
30PubMed Papers
21Diseases
0Drugs
32Pathogenic Variants
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
retromer complexguanyl-nucleotide exchange factor activityprotein bindingretrograde transport, endosome to Golgigenetic developmental and epileptic encephalopathyneurodegenerative diseaseEpileptic encephalopathyocular hypertension
✦AI Summary

DENND5A encodes a guanine nucleotide exchange factor (GEF) containing a DENN domain that activates Rab proteins, particularly Rab39 family members, by promoting GDP-to-GTP exchange to facilitate membrane trafficking 1. The protein localizes to the trans-Golgi network and retromer complex, functioning in retrograde transport and endosomal-to-Golgi trafficking 1. DENND5A interacts with apical polarity complex components PALS1 and MUPP1, playing a critical role in symmetric cell division of neural progenitors through centrosomal localization that influences mitotic spindle alignment 23. Loss-of-function variants in DENND5A cause developmental and epileptic encephalopathy 49 (DEE49), characterized by refractory seizures, developmental delay, and cerebral calcifications 42. Disease pathogenesis involves disrupted symmetric division of apical neural progenitors, leading to premature neuronal differentiation and shortened neurogenesis periods 23. Additionally, DENND5A variants impair melanosomal cargo transport through disrupted SNX1 interaction, increasing familial melanoma susceptibility 5. In epithelial cells, DENND5A loss-of-function contributes to aberrant cystogenesis through combined trafficking and mitotic defects 6. Notably, variant type correlates with DEE49 disease severity, with clinical implications for precision medicine approaches 3.

Sources cited
1
DENND5A is a DENN domain GEF that activates Rab39, localizes to trans-Golgi network and retromer complex, functions in membrane trafficking
PMID: 20937701
2
DENND5A interacts with Pals1/MUPP1 Crumbs complex, essential for symmetric neural progenitor cell division; loss causes mitotic spindle misalignment and premature neuronal differentiation
PMID: 39174524
3
DENND5A localizes to centrosomes, required for symmetric cell division; variants correlate with DEE49 disease severity; disruption shortens neurogenesis period
PMID: 38352438
4
DENND5A loss-of-function mutations cause epileptic encephalopathy with cerebral calcifications; upregulates neurotrophin receptors affecting neuronal development
PMID: 27866705
5
DENND5A loss-of-function impairs melanosomal cargo transport through SNX1 interaction, increasing familial melanoma susceptibility
PMID: 34906508
6
DENND5A knockdown causes aberrant cystogenesis through combined intracellular trafficking and mitotic defects in epithelial cells
PMID: 25621300
Disease Associationsβ“˜21
genetic developmental and epileptic encephalopathyOpen Targets
0.67Moderate
neurodegenerative diseaseOpen Targets
0.48Moderate
Epileptic encephalopathyOpen Targets
0.46Moderate
ocular hypertensionOpen Targets
0.34Weak
migraine disorderOpen Targets
0.30Weak
skin diseaseOpen Targets
0.27Weak
hypertrophic cardiomyopathyOpen Targets
0.21Weak
genetic disorderOpen Targets
0.19Weak
coronary artery diseaseOpen Targets
0.07Suggestive
cardiovascular diseaseOpen Targets
0.05Suggestive
coronary atherosclerosisOpen Targets
0.03Suggestive
cystOpen Targets
0.02Suggestive
microcephalyOpen Targets
0.01Suggestive
melanomaOpen Targets
0.01Suggestive
ulcerative colitisOpen Targets
0.01Suggestive
Lyme diseaseOpen Targets
0.00Suggestive
psoriasisOpen Targets
0.00Suggestive
leukemiaOpen Targets
0.00Suggestive
SeizureOpen Targets
0.00Suggestive
VentriculomegalyOpen Targets
0.00Suggestive
Developmental and epileptic encephalopathy 49UniProt
Pathogenic Variants32
NM_015213.4(DENND5A):c.2314C>T (p.Arg772Ter)Pathogenic
Developmental and epileptic encephalopathy, 49|not provided|DENND5A-related disorder
β˜…β˜…β˜†β˜†2024β†’ Residue 772
NM_015213.4(DENND5A):c.949+1G>ALikely pathogenic
Developmental and epileptic encephalopathy, 49|not provided
β˜…β˜…β˜†β˜†2023
NM_015213.4(DENND5A):c.1266del (p.Glu423fs)Likely pathogenic
Bilateral frontoparietal polymicrogyria
β˜…β˜†β˜†β˜†2026β†’ Residue 423
NM_015213.4(DENND5A):c.517_518del (p.Asp173fs)Pathogenic
Developmental and epileptic encephalopathy, 49
β˜…β˜†β˜†β˜†2025β†’ Residue 173
NM_015213.4(DENND5A):c.2283+1G>TLikely pathogenic
not provided
β˜…β˜†β˜†β˜†2025
NM_015213.4(DENND5A):c.292-2A>CLikely pathogenic
not provided
β˜…β˜†β˜†β˜†2025
NM_015213.4(DENND5A):c.127C>T (p.Gln43Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 43
NM_015213.4(DENND5A):c.2735+2T>CLikely pathogenic
not provided
β˜…β˜†β˜†β˜†2025
NM_015213.4(DENND5A):c.1455+1G>ALikely pathogenic
not provided
β˜…β˜†β˜†β˜†2025
NM_015213.4(DENND5A):c.2161C>T (p.Gln721Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 721
NM_015213.4(DENND5A):c.955C>T (p.Gln319Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 319
NM_015213.4(DENND5A):c.949+1G>TLikely pathogenic
not provided
β˜…β˜†β˜†β˜†2023
NM_015213.4(DENND5A):c.3488del (p.Asn1163fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 1163
NM_015213.4(DENND5A):c.3387+1G>TPathogenic
not provided
β˜…β˜†β˜†β˜†2023
NM_015213.4(DENND5A):c.1274del (p.Asn425fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 425
NM_015213.4(DENND5A):c.3388C>T (p.Arg1130Ter)Likely pathogenic
Developmental and epileptic encephalopathy, 49
β˜…β˜†β˜†β˜†2023β†’ Residue 1130
NM_015213.4(DENND5A):c.842del (p.Leu281fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 281
NM_015213.4(DENND5A):c.612dup (p.Lys205Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2023β†’ Residue 205
NM_015213.4(DENND5A):c.2660G>A (p.Trp887Ter)Likely pathogenic
Developmental and epileptic encephalopathy, 49
β˜…β˜†β˜†β˜†2023β†’ Residue 887
NM_015213.4(DENND5A):c.238C>T (p.Arg80Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2022β†’ Residue 80
View on ClinVar β†—
Related Genes
RAB6AProtein interaction98%RAB11AProtein interaction98%SNX1Protein interaction75%TMEM87BShared pathway50%DENND2AShared pathway50%TBC1D10CShared pathway33%
Tissue Expression6 tissues
Heart
100%
Bone Marrow
76%
Brain
72%
Lung
52%
Ovary
35%
Liver
18%
Gene Interaction Network
Click a node to explore
DENND5ARAB6ARAB11ASNX1TMEM87BDENND2ATBC1D10C
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt Q6IQ26
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
0.57Moderately Constrained
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.46 [0.37–0.57]
RankingsWhere DENND5A stands among ~20K protein-coding genes
  • #11,900of 20,598
    Most Researched30
  • #1,764of 5,498
    Most Pathogenic Variants32
  • #3,792of 17,882
    Most Constrained (LOEUF)0.57 Β· top quartile
Genes detectedDENND5A
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Loss of symmetric cell division of apical neural progenitors drives DENND5A-related developmental and epileptic encephalopathy.
PMID: 39174524
Nat Commun Β· 2024
1.00
2
Novel loss-of-function variant in DENND5A impedes melanosomal cargo transport and predisposes to familial cutaneous melanoma.
PMID: 34906508
Genet Med Β· 2022
0.90
3
Cancer driver candidate genes AVL9, DENND5A and NUPL1 contribute to MDCK cystogenesis.
PMID: 25621300
Oncoscience Β· 2014
0.80
4
Role of DENN Domain-Containing Protein 5b (dennd5b) during early embryonic development of zebrafish.
PMID: 40996562
Mol Biol Rep Β· 2025
0.70
5
Loss of symmetric cell division of apical neural progenitors drives
PMID: 38352438
medRxiv Β· 2024
0.60