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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
β“˜GeneE is for informational purposes only. It is not a substitute for professional medical advice, diagnosis, or treatment.
ATL3
atlastin GTPase 3
Chromosome 11 Β· 11q13.1
NCBI Gene: 25923Ensembl: ENSG00000184743.13HGNC: HGNC:24526UniProt: B4DXC4
81PubMed Papers
21Diseases
0Drugs
3Pathogenic Variants
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
endoplasmic reticulumendoplasmic reticulum membranemembraneendoplasmic reticulum tubular networkneuropathy, hereditary sensory, type 1Fhereditary sensory and autonomic neuropathy type 1genetic disorderprostate cancer
✦AI Summary

ATL3 (atlastin GTPase 3) is a membrane-anchored GTPase that mediates GTP-dependent fusion of endoplasmic reticulum (ER) membranes, maintaining the continuous ER network 1. ATL3 facilitates three-way junction formation where ER tubules intersect through GTP-dependent homodimerization via its G-domain and 3HB regions, with subsequent GTP hydrolysis driving membrane fusion and homodimer disassembly 1. Beyond ER morphogenesis, ATL3 functions in ER-selective autophagy (reticulophagy), working in parallel with RTN3L and CALCOCO1 to target misfolded disease-causing proteins for lysosomal degradation at distinct ER-reticulophagy sites (ERPHS) 2. Under cellular stresses, ATL3 shapes tubulovesicular ER structures (ER tubular bodies) that mediate stress-induced, Golgi-independent secretion of trafficking-deficient proteins like Ξ”F508-CFTR and SARS-CoV-2 spike protein 1. Clinically, ATL3 mutations cause hereditary sensory neuropathy type 1F (HSN1F), characterized by distal sensory impairment, numbness, pain insensitivity, and muscle weakness in lower extremities 34. Only three ATL3 variants have been documented in HSN1F patients, with variable clinical presentations including hearing problems and gait disturbances 3. ATL3's role in maintaining ER homeostasis through both membrane fusion and selective autophagy suggests that neuropathic manifestations may result from impaired ER network integrity and proteostasis in sensory neurons.

Sources cited
1
ATL3 mediates ER membrane fusion and shapes tubulovesicular structures involved in stress-induced protein secretion
PMID: 39919755
2
ATL3 functions in reticulophagy alongside RTN3L and CALCOCO1 to target misfolded proteins for autophagy at ERPHS sites
PMID: 38818751
3
Novel ATL3 nonsense variant causes HSN1F with sensory disturbances, numbness, and muscle weakness
PMID: 36856139
4
ATL3 variants are associated with hereditary sensory and autonomic neuropathies, including previously rarely recognized disease entities
PMID: 37769650
⚠Limited data available β€” This gene has 4 indexed publications. Summary and analysis may be incomplete.
Disease Associationsβ“˜21
neuropathy, hereditary sensory, type 1FOpen Targets
0.72Strong
hereditary sensory and autonomic neuropathy type 1Open Targets
0.57Moderate
genetic disorderOpen Targets
0.19Weak
prostate cancerOpen Targets
0.11Weak
Charcot-Marie-Tooth disease axonal type 2NOpen Targets
0.11Weak
Familial prostate cancerOpen Targets
0.11Weak
neoplasmOpen Targets
0.11Weak
breast cancerOpen Targets
0.06Suggestive
cirrhosis of liverOpen Targets
0.04Suggestive
type 2 diabetes mellitusOpen Targets
0.04Suggestive
COVID-19Open Targets
0.03Suggestive
cancerOpen Targets
0.02Suggestive
infectionOpen Targets
0.02Suggestive
renal cell carcinomaOpen Targets
0.02Suggestive
alveolar soft part sarcomaOpen Targets
0.02Suggestive
Angel-shaped phalango-epiphyseal dysplasiaOpen Targets
0.02Suggestive
hypotrichosis 1Open Targets
0.02Suggestive
Machado-Joseph diseaseOpen Targets
0.02Suggestive
Flavivirus InfectionsOpen Targets
0.01Suggestive
Venous thrombosisOpen Targets
0.01Suggestive
Neuropathy, hereditary sensory, 1FUniProt
Pathogenic Variants3
NM_015459.5(ATL3):c.1046_1066dup (p.Ala355_Ala356insGluAlaAsnAsnLeuAlaAla)Likely pathogenic
Neuropathy, hereditary sensory, type 1F
β˜…β˜†β˜†β˜†2025β†’ Residue 355
NM_015459.5(ATL3):c.1013C>G (p.Pro338Arg)Pathogenic
Neuropathy, hereditary sensory, type 1F
β˜†β˜†β˜†β˜†2020β†’ Residue 338
NM_015459.5(ATL3):c.575A>G (p.Tyr192Cys)Pathogenic
Neuropathy, hereditary sensory, type 1F
β˜†β˜†β˜†β˜†2014β†’ Residue 192
View on ClinVar β†—
Related Genes
ATL2Shared pathway100%GABARAPProtein interaction96%GABARAPL1Protein interaction95%SPARTProtein interaction85%SSNA1Protein interaction82%RTN4Protein interaction82%
Tissue Expression6 tissues
Lung
100%
Liver
85%
Ovary
77%
Brain
69%
Heart
45%
Bone Marrow
38%
Gene Interaction Network
Click a node to explore
ATL3ATL2GABARAPGABARAPL1SPARTSSNA1RTN4
PROTEIN STRUCTURE
Preparing viewer…
PDB5VGR Β· 2.10 Γ… Β· X-ray
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
0.89LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.68 [0.53–0.89]
RankingsWhere ATL3 stands among ~20K protein-coding genes
  • #5,846of 20,598
    Most Researched81
  • #4,011of 5,498
    Most Pathogenic Variants3
  • #7,990of 17,882
    Most Constrained (LOEUF)0.89
Genes detectedATL3
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Reticulophagy and viral infection.
PMID: 39394962
Autophagy Β· 2025
1.00
2
USP20 deubiquitinates and stabilizes the reticulophagy receptor RETREG1/FAM134B to drive reticulophagy.
PMID: 38705724
Autophagy Β· 2024
0.90
3
A 20-year Clinical and Genetic Neuromuscular Cohort Analysis in Lebanon: An International Effort.
PMID: 34602496
J Neuromuscul Dis Β· 2022
0.80
4
ATF4 links ER stress with reticulophagy in glioblastoma cells.
PMID: 33111629
Autophagy Β· 2021
0.70
5
Tubular ER structures shaped by ER-phagy receptors engage in stress-induced Golgi bypass.
PMID: 39919755
Dev Cell Β· 2025
0.60