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10 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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SGMS2
sphingomyelin synthase 2
Chromosome 4 · 4q25
NCBI Gene: 166929Ensembl: ENSG00000164023.16HGNC: HGNC:28395UniProt: Q8NHU3
44PubMed Papers
22Diseases
0Drugs
4Pathogenic Variants
FUNCTIONAL ROLE
Kinase
CLINICAL
OMIM Disease Gene
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
plasma membraneGolgi apparatusprotein bindingsphingomyelin synthase activitycalvarial doughnut lesions-bone fragility syndromeCalvarial doughnut lesions - bone fragilitycalvarial doughnut lesions with bone fragility and spondylometaphyseal dysplasiagenetic disorder
✦AI Summary

SGMS2 encodes sphingomyelin synthase 2 (SMS2), a membrane-associated enzyme catalyzing the reversible transfer of phosphocholine from phosphatidylcholine to ceramide, producing sphingomyelin and diacylglycerol 12. The enzyme localizes primarily to the plasma membrane and Golgi apparatus, regulating signal transduction by controlling levels of mitogenic diacylglycerol, proapoptotic ceramide, and sphingomyelin—a key structural component of membrane lipid rafts 23. SGMS2 is essential for normal bone matrix mineralization 4. Pathogenic SGMS2 variants cause calvarial doughnut lesions with bone fragility, a rare autosomal dominant monogenic osteoporosis characterized by low bone mineral density, skull sclerosis, and increased fracture risk, with severity ranging from childhood-onset osteoporosis to severe spondylometaphyseal dysplasia with neonatal fractures 56. Zebrafish knockdown studies confirm SGMS2's critical role in skeletal development and osteogenic cell function 7. Beyond skeletal homeostasis, SGMS2 contributes to tumor immunity: in hepatocellular carcinoma, SGMS2+ macrophages adopt an M1-like phenotype and recruit cytotoxic NK cells via CXCL2 secretion, correlating with improved prognosis and superior PD-1 immunotherapy response 8. In pancreatic cancer, elevated SGMS2 facilitates immune evasion through sphingomyelin-mediated PD-L1 localization on lipid rafts 9. SGMS2 dysregulation also promotes keloid fibroblast proliferation and migration through miR-485-3p pathway modulation 10.

Sources cited
1
SGMS2 catalyzes reversible phosphocholine transfer from phosphatidylcholine to ceramide forming sphingomyelin
PMID: 14685263
2
SGMS2 regulates signal transduction via diacylglycerol, ceramide, and sphingomyelin in membrane rafts
PMID: 17449912
3
SGMS2 regulation of ceramide and sphingomyelin affects membrane raft-based signal transduction
PMID: 17982138
4
SGMS2 is required for normal bone matrix mineralization
PMID: 30779713
5
SGMS2 mutations cause calvarial doughnut lesions with bone fragility and spondylometaphyseal dysplasia
PMID: 37886644
6
SGMS2 variants cause rare autosomal dominant skeletal disorder with low bone mineral density and skull sclerosis
PMID: 37175737
7
SGMS2 knockdown impairs skeletal development and osteogenic cell function in zebrafish
PMID: 41143154
8
SGMS2+ macrophages recruit cytotoxic NK cells and improve HCC prognosis and PD-1 therapy response
PMID: 41316300
9
SGMS2-mediated sphingomyelin synthesis promotes PD-L1 lipid raft localization in pancreatic cancer immune evasion
PMID: 40158738
10
SGMS2 promotes keloid fibroblast proliferation and migration via miR-485-3p pathway
PMID: 37407394
Disease Associationsⓘ22
calvarial doughnut lesions-bone fragility syndromeOpen Targets
0.64Moderate
Calvarial doughnut lesions - bone fragilityOpen Targets
0.63Moderate
calvarial doughnut lesions with bone fragility and spondylometaphyseal dysplasiaOpen Targets
0.48Moderate
genetic disorderOpen Targets
0.34Weak
neurodegenerative diseaseOpen Targets
0.27Weak
glomerulonephritisOpen Targets
0.27Weak
poisoningOpen Targets
0.27Weak
response to antihypertensive drugOpen Targets
0.24Weak
age-related macular degenerationOpen Targets
0.17Weak
breast cancerOpen Targets
0.09Suggestive
neoplasmOpen Targets
0.08Suggestive
hepatocellular carcinomaOpen Targets
0.08Suggestive
Ehlers-Danlos syndrome, dermatosparaxis typeOpen Targets
0.07Suggestive
Platelet-activating factor acetylhydrolase deficiencyOpen Targets
0.06Suggestive
gliomaOpen Targets
0.06Suggestive
Cerebral ischemiaOpen Targets
0.05Suggestive
glycogen storage disease VIOpen Targets
0.05Suggestive
neonatal intrahepatic cholestasis due to citrin deficiencyOpen Targets
0.04Suggestive
lipodystrophy, congenital generalized, type 5Open Targets
0.04Suggestive
Familial hemophagocytic lymphohistiocytosisOpen Targets
0.04Suggestive
Calvarial doughnut lesions with bone fragilityUniProt
Calvarial doughnut lesions with bone fragility and spondylometaphyseal dysplasiaUniProt
Pathogenic Variants4
NM_001375905.1(SGMS2):c.148C>T (p.Arg50Ter)Pathogenic
Calvarial doughnut lesions-bone fragility syndrome|Inborn genetic diseases|not provided|Calvarial doughnut lesions with bone fragility with or without spondylometaphyseal dysplasia
★★☆☆2025→ Residue 50
NM_001375905.1(SGMS2):c.191T>G (p.Met64Arg)Pathogenic
Calvarial doughnut lesions with bone fragility and spondylometaphyseal dysplasia|not provided
★☆☆☆2025→ Residue 64
NM_001375905.1(SGMS2):c.613C>T (p.Arg205Ter)Likely pathogenic
not provided
★☆☆☆2024→ Residue 205
NM_001375905.1(SGMS2):c.185T>G (p.Ile62Ser)Pathogenic
Calvarial doughnut lesions with bone fragility and spondylometaphyseal dysplasia
☆☆☆☆2019→ Residue 62
View on ClinVar ↗
Related Genes
ACER2Protein interaction97%PLPP2Protein interaction96%PLPP3Protein interaction96%SGPP1Protein interaction96%SGPP2Protein interaction96%CERS3Protein interaction96%
Tissue Expression6 tissues
Heart
100%
Lung
71%
Liver
47%
Bone Marrow
22%
Brain
17%
Ovary
6%
Gene Interaction Network
Click a node to explore
SGMS2ACER2PLPP2PLPP3SGPP1SGPP2CERS3
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted · UniProt Q8NHU3
View on AlphaFold ↗
Constraintⓘ
LOEUFⓘ
0.62LoF Tolerant
pLIⓘ
0.19Tolerant
Observed/Expected LoF0.42 [0.29–0.62]
RankingsWhere SGMS2 stands among ~20K protein-coding genes
  • #9,649of 20,598
    Most Researched44
  • #3,804of 5,498
    Most Pathogenic Variants4
  • #4,385of 17,882
    Most Constrained (LOEUF)0.62 · top quartile
Genes detectedSGMS2
Sources retrieved10 papers
Response time—
📄 Sources
10▼
1
Early-Onset Osteoporosis.
PMID: 34236445
Calcif Tissue Int · 2022
1.00
2
Bone fragility and osteoporosis in children and young adults.
PMID: 37668887
J Endocrinol Invest · 2024
0.90
3
Stromal Stiffness-Regulated IGF2BP2 in Pancreatic Cancer Drives Immune Evasion via Sphingomyelin Metabolism.
PMID: 40158738
Gastroenterology · 2025
0.80
4
SGMS2+ macrophages enhance NR4A3hi NK cell infiltration to improve prognosis and PD-1 treatment efficacy in hepatocellular carcinoma.
PMID: 41316300
J Transl Med · 2025
0.70
5
PMID: 37886644
Front Endocrinol (Lausanne) · 2023
0.60