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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.
TM2D3
TM2 domain containing 3
Chromosome 15 Β· 15q26.3
NCBI Gene: 80213Ensembl: ENSG00000184277.13HGNC: HGNC:24128UniProt: B4DLL2
22PubMed Papers
21Diseases
0Drugs
4Pathogenic Variants
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
protein bindingNotch receptor processing, ligand-independentpositive regulation of Notch signaling pathwaylateral inhibitionneurodegenerative diseaseAlzheimer diseaseNeurodevelopmental disorderlymphatic malformation 11
✦AI Summary

TM2D3 (TM2 domain containing 3) is a transmembrane protein localized to the endoplasmic reticulum that functions as a positive regulator of Notch signaling 12. The protein is conserved across metazoans and appears to regulate Notch signaling at the Ξ³-secretase cleavage step, with overexpression of its conserved region acting as a potent inhibitor of this pathway 3. TM2D3 also influences phagocytosis, particularly the uptake of amyloid-Ξ² aggregates 4. The gene is highly expressed in the central nervous system and plays critical roles in cellular stress response and mitochondrial function 2. Bi-allelic variants in TM2D3 cause severe syndromic neurodevelopmental disorders characterized by microcephaly, developmental delay, and dysmorphic features, associated with ER stress sensitivity and secondary mitochondrial alterations 2. A rare functional variant (P155L) is associated with increased risk and earlier onset of late-onset Alzheimer's disease in Icelandic populations 1. The variant abolishes the protein's ability to rescue Notch signaling defects in Drosophila models, establishing it as functionally damaging 1. TM2D3 is also subject to clonal selection in hematopoiesis, suggesting broader roles in cellular proliferation and cancer predisposition 5.

Sources cited
1
TM2D3 is an ER protein that regulates ER stress response and affects mitochondrial function; bi-allelic variants cause severe neurodevelopmental disorders
PMID: 40449487
2
TM2D3 functions as a positive regulator of Notch signaling; P155L variant is associated with late-onset Alzheimer's disease and is functionally damaging
PMID: 27764101
3
TM2D proteins regulate Notch signaling at the Ξ³-secretase cleavage step and are required for neuronal function
PMID: 34905536
4
TM2D3 preferentially influences uptake of amyloid-Ξ² aggregates through phagocytosis regulation
PMID: 30397336
5
TM2D3 is subject to clonal selection in hematopoiesis through copy-neutral loss of heterozygosity mutations
PMID: 32581363
Disease Associationsβ“˜21
neurodegenerative diseaseOpen Targets
0.30Weak
Alzheimer diseaseOpen Targets
0.19Weak
Neurodevelopmental disorderOpen Targets
0.19Weak
lymphatic malformation 11Open Targets
0.05Suggestive
hereditary angioedemaOpen Targets
0.04Suggestive
hereditary angioedema with normal C1InhOpen Targets
0.04Suggestive
LipedemaOpen Targets
0.04Suggestive
Lymphedema - cerebral arteriovenous anomalyOpen Targets
0.04Suggestive
lymphedema-cerebral arteriovenous anomaly syndromeOpen Targets
0.04Suggestive
lymphatic malformation 8Open Targets
0.04Suggestive
lymphatic malformation 14Open Targets
0.03Suggestive
Milroy diseaseOpen Targets
0.03Suggestive
pernicious anemiaOpen Targets
0.03Suggestive
lymphatic malformation 7Open Targets
0.03Suggestive
central nervous system cancerOpen Targets
0.02Suggestive
adolescent idiopathic scoliosisOpen Targets
0.02Suggestive
disturbances of sensation of smell and tasteOpen Targets
0.02Suggestive
liver diseaseOpen Targets
0.02Suggestive
ovarian neoplasmOpen Targets
0.02Suggestive
neoplasmOpen Targets
0.01Suggestive
Alzheimer diseaseUniProt
Pathogenic Variants4
NM_078474.3(TM2D3):c.503G>A (p.Gly168Asp)Pathogenic
Neurocardiorenal malformation syndrome|TM2D3-related disorder
β˜†β˜†β˜†β˜†2025β†’ Residue 168
NM_078474.3(TM2D3):c.7G>T (p.Gly3Ter)Pathogenic
TM2D3-related disorder|Neurocardiorenal malformation syndrome
β˜†β˜†β˜†β˜†2025β†’ Residue 3
NM_078474.3(TM2D3):c.153dup (p.Val52fs)Pathogenic
TM2D3-related disorder|Neurocardiorenal malformation syndrome
β˜†β˜†β˜†β˜†2025β†’ Residue 52
NM_078474.3(TM2D3):c.677C>T (p.Thr226Met)Likely pathogenic
TM2D3-related disorder
β˜†β˜†β˜†β˜†2024β†’ Residue 226
View on ClinVar β†—
Related Genes
TARS3Protein interaction72%NOTCH2NLAShared pathway33%NOTCH2NLCShared pathway33%NOTCH2NLBShared pathway33%ENHOShared pathway33%TMEM35AShared pathway33%
Tissue Expression6 tissues
Brain
100%
Ovary
81%
Liver
76%
Heart
75%
Bone Marrow
65%
Lung
54%
Gene Interaction Network
Click a node to explore
TM2D3TARS3NOTCH2NLANOTCH2NLCNOTCH2NLBENHOTMEM35A
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt Q9BRN9
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
1.57LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF1.18 [0.89–1.57]
RankingsWhere TM2D3 stands among ~20K protein-coding genes
  • #13,773of 20,598
    Most Researched22
  • #3,851of 5,498
    Most Pathogenic Variants4
  • #15,528of 17,882
    Most Constrained (LOEUF)1.57
Genes detectedTM2D3
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Identification of phagocytosis regulators using magnetic genome-wide CRISPR screens.
PMID: 30397336
Nat Genet Β· 2018
1.00
2
Insights into clonal haematopoiesis from 8,342 mosaic chromosomal alterations.
PMID: 29995854
Nature Β· 2018
0.90
3
Bi-allelic variants in TM2D3 cause a severe syndromic neurodevelopmental disorder associated with endoplasmic reticulum and mitochondrial abnormalities.
PMID: 40449487
Am J Hum Genet Β· 2025
0.80
4
TM2D3 rs675436 or FGFR2 rs755793 polymorphisms and susceptibility to Epstein-Barr virus-associated tumors in Chinese Han population.
PMID: 29446487
J Med Virol Β· 2018
0.70
5
TM2D genes regulate Notch signaling and neuronal function in Drosophila.
PMID: 34905536
PLoS Genet Β· 2021
0.60