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6 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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GDPD3
glycerophosphodiester phosphodiesterase domain containing 3
Chromosome 16 · 16p11.2
NCBI Gene: 79153Ensembl: ENSG00000102886.15HGNC: HGNC:28638UniProt: Q7L5L3
20PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
N-acylethanolamine metabolic processphosphoric diester hydrolase activityextracellular exosomeendoplasmic reticulumAbnormal urine sodium concentrationchronic myelogenous leukemiachronic obstructive pulmonary diseaseEpidermal Inclusion Cyst
✦AI Summary

GDPD3 is a lysophospholipase D enzyme that hydrolyzes lysoglycerophospholipids to generate lysophosphatidic acid (LPA) and corresponding amines, with preference for lyso-PAF, lysophosphatidylcholine, and N-acylethanolamine lysophospholipids 1. It does not display classical glycerophosphodiester phosphodiesterase activity 1. Mechanistically, GDPD3 functions as a rate-limiting enzyme in hepatic lipid metabolism by producing LPA, a key intermediate in the glycerol phosphate pathway that generates over 90% of liver triacylglycerols 2. GDPD3 also regulates epithelial-mesenchymal transition (EMT) and tumor progression through the LPA/LPAR1/AKT signaling axis 3. DISEASE RELEVANCE: GDPD3 overexpression promotes non-alcoholic fatty liver disease, with increased hepatic GDPD3 mRNA levels observed in patients with hepatic steatosis 2. GDPD3 is significantly upregulated in prostate adenocarcinoma, where knockdown inhibits tumor cell proliferation, invasion, and migration 3. Additionally, GDPD3 is among core aging-related genes upregulated in aged COPD patients 4, and serves as a biomarker for predicting chemotherapy response in muscle-invasive urothelial carcinoma 5. CLINICAL SIGNIFICANCE: GDPD3 represents a potential therapeutic target for managing hepatic steatosis and prostate cancer progression, while offering prognostic and predictive utility in multiple disease contexts.

Sources cited
1
GDPD3 hydrolyzes lysoglycerophospholipids to produce LPA and amines, with preference for lyso-PAF, lysophosphatidylcholine, and N-acylethanolamine lysophospholipids; lacks glycerophosphodiester phosphodiesterase activity
PMID: 27637550
2
GDPD3 overexpression increases LysoPA production and promotes hepatic TAG biosynthesis and liver steatosis; increased GDPD3 mRNA levels found in hepatic steatosis patients
PMID: 32430316
3
GDPD3 regulates EMT and prostate adenocarcinoma progression via LPA/LPAR1/AKT axis; knockdown inhibits proliferation, invasion, and migration
PMID: 41562071
4
GDPD3 is a core aging-related gene upregulated in aged COPD patients
PMID: 36309899
5
GDPD3 serves as a protein biomarker for predicting neoadjuvant chemotherapy response in muscle-invasive urothelial carcinoma
PMID: 26230923
6
GDPD3 expression is regulated by lncRNA PVT1 and involved in trophoblast cell function through PI3K/AKT pathway; downregulated in gestational diabetes mellitus and preeclampsia
PMID: 31627090
Disease Associationsⓘ20
Abnormal urine sodium concentrationOpen Targets
0.18Weak
chronic myelogenous leukemiaOpen Targets
0.09Suggestive
chronic obstructive pulmonary diseaseOpen Targets
0.08Suggestive
Epidermal Inclusion CystOpen Targets
0.06Suggestive
esophageal squamous cell carcinomaOpen Targets
0.04Suggestive
atrial fibrillationOpen Targets
0.04Suggestive
smoking initiationOpen Targets
0.03Suggestive
psoriasisOpen Targets
0.03Suggestive
prostate cancerOpen Targets
0.03Suggestive
ArthropathyOpen Targets
0.03Suggestive
rheumatoid arthritisOpen Targets
0.03Suggestive
colorectal cancerOpen Targets
0.03Suggestive
polyp of colonOpen Targets
0.02Suggestive
multiple sclerosisOpen Targets
0.02Suggestive
musculoskeletal system diseaseOpen Targets
0.02Suggestive
neoplasmOpen Targets
0.02Suggestive
Abnormality of the skeletal systemOpen Targets
0.02Suggestive
oral squamous cell carcinomaOpen Targets
0.02Suggestive
schizophreniaOpen Targets
0.02Suggestive
Alzheimer diseaseOpen Targets
0.02Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
LPAR1Protein interaction99%ENPP2Protein interaction99%LPAR2Protein interaction99%LPCAT4Protein interaction91%ENPP3Protein interaction91%PLA2G1BProtein interaction91%
Tissue Expression6 tissues
Lung
100%
Ovary
100%
Liver
42%
Heart
31%
Bone Marrow
19%
Brain
5%
Gene Interaction Network
Click a node to explore
GDPD3LPAR1ENPP2LPAR2LPCAT4ENPP3PLA2G1B
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted · UniProt Q7L5L3
View on AlphaFold ↗
Constraintⓘ
LOEUFⓘ
1.18LoF Tolerant
pLIⓘ
0.00Tolerant
Observed/Expected LoF0.90 [0.70–1.18]
RankingsWhere GDPD3 stands among ~20K protein-coding genes
  • #14,160of 20,598
    Most Researched20
  • #12,308of 17,882
    Most Constrained (LOEUF)1.18
Genes detectedGDPD3
Sources retrieved6 papers
Response time—
📄 Sources
6▼
1
Human GDPD3 overexpression promotes liver steatosis by increasing lysophosphatidic acid production and fatty acid uptake.
PMID: 32430316
J Lipid Res · 2020
1.00
2
Identify GDPD3 as a key regulator of epithelial-mesenchymal transition and prostate adenocarcinoma progression via the LPA/LPAR1/AKT axis: transcriptomic and experimental study.
PMID: 41562071
Front Immunol · 2025
0.83
3
Deficiency of the Endocytic Protein Hip1 Leads to Decreased
PMID: 30224518
Mol Cell Biol · 2018
0.67
4
Identification and validation of genetic signature associated with aging in chronic obstructive pulmonary disease.
PMID: 36309899
Aging (Albany NY) · 2022
0.50
5
Down-regulated long non-coding RNA PVT1 contributes to gestational diabetes mellitus and preeclampsia via regulation of human trophoblast cells.
PMID: 31627090
Biomed Pharmacother · 2019
0.33