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25 sources retrieved · Most recent: April 2026 · Index updated 15 days ago
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CLPTM1L
CLPTM1 like
Chromosome 5 · 5p15.33
NCBI Gene: 81037Ensembl: ENSG00000049656.15HGNC: HGNC:24308UniProt: Q96KA5
155PubMed Papers
0Diseases
0Drugs
0Pathogenic Variants
FUNCTIONAL ROLE
Transporter
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
protein bindingphospholipid scramblase activitymembraneendoplasmic reticulum
✦AI Summary

CLPTM1L (CLPTM1 like) functions as a phospholipid scramblase mediating translocation of glucosaminylphosphatidylinositol (GlcN-PI) and other phospholipids across the endoplasmic reticulum membrane, participating in glycosylphosphatidylinositol (GPI) biosynthesis 1. Beyond its canonical GPI-anchoring pathway role 2, CLPTM1L operates in cellular lipid metabolism through interaction with ERLIN2 to stabilize the transcription factor SREBP1, thereby regulating fatty acid synthesis 3. Clinically, CLPTM1L is a well-established cancer susceptibility gene. Genetic variants (rs402710, rs401681, rs2736098) show strong associations with multiple malignancies including lung, bladder, esophageal, gastric, pancreatic, and skin cancers, as well as glioma 45. In nasopharyngeal carcinoma, CLPTM1L overexpression enhances cell proliferation, migration, and invasion through the KLF1/CLPTM1L/ERLIN2/SREBP1 cascade 3. High CLPTM1L expression correlates with poor prognosis in lung cancer patients 6. Additionally, CLPTM1L variants are associated with cervical cancer risk, modulated by HPV infection and DNA methylation 7, and hepatocellular carcinoma susceptibility 8. Enhancer-driven activation of CLPTM1L represents an overlooked disease mechanism, particularly at the CLPTM1L-TERT locus 9.

Sources cited
1
CLPTM1L (CLPTM1 like) functions as a phospholipid scramblase mediating translocation of glucosaminylphosphatidylinositol (GlcN-PI) and other phospholipids across the endoplasmic reticulum membrane, participating in glycosylphosphatidylinositol (GPI) biosynthesis .
PMID: 35344438
2
Beyond its canonical GPI-anchoring pathway role , CLPTM1L operates in cellular lipid metabolism through interaction with ERLIN2 to stabilize the transcription factor SREBP1, thereby regulating fatty acid synthesis .
PMID: 37389656
3
Beyond its canonical GPI-anchoring pathway role , CLPTM1L operates in cellular lipid metabolism through interaction with ERLIN2 to stabilize the transcription factor SREBP1, thereby regulating fatty acid synthesis .
PMID: 40550808
4
High CLPTM1L expression correlates with poor prognosis in lung cancer patients .
PMID: 27062701
5
Additionally, CLPTM1L variants are associated with cervical cancer risk, modulated by HPV infection and DNA methylation , and hepatocellular carcinoma susceptibility .
PMID: 39352309
6
Additionally, CLPTM1L variants are associated with cervical cancer risk, modulated by HPV infection and DNA methylation , and hepatocellular carcinoma susceptibility .
PMID: 25339005
7
Enhancer-driven activation of CLPTM1L represents an overlooked disease mechanism, particularly at the CLPTM1L-TERT locus .
PMID: 34040254
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
PLSCR5Shared pathway100%TERTProtein interaction93%RNASEH2AProtein interaction82%NR5A2Protein interaction72%DMRT1Protein interaction72%ATF7IPProtein interaction71%
Tissue Expression

No tissue expression data available for this gene.

Gene Interaction Network
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CLPTM1LPLSCR5TERTRNASEH2ANR5A2DMRT1ATF7IP
PROTEIN STRUCTURE
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AlphaFoldAI-predicted · UniProt Q96KA5
View on AlphaFold ↗
Constraintⓘ
LOEUFⓘ
0.74LoF Tolerant
pLIⓘ
0.00Tolerant
Observed/Expected LoF0.56 [0.44–0.74]
RankingsWhere CLPTM1L stands among ~20K protein-coding genes
  • #2,906of 20,598
    Most Researched155 · top quartile
  • #5,767of 17,882
    Most Constrained (LOEUF)0.74
Genes detectedCLPTM1L
Sources retrieved25 papers
Response time—
📄 Sources
25▼
1
CLPTM1L interacts with ERLIN2 to stabilize SREBP1 and drive tumorigenesis in nasopharyngeal carcinoma.
PMID: 40550808
Cell Death Dis · 2025
1.00
2
Enhancer release and retargeting activates disease-susceptibility genes.
PMID: 34040254
Nature · 2021
0.90
3
Cumulative Evidence for Relationships Between Multiple Variants in the TERT and CLPTM1L Region and Risk of Cancer and Non-Cancer Disease.
PMID: 35847915
Front Oncol · 2022
0.80
4
Genetic variations in the TERT and CLPTM1L gene region and gastrointestinal stromal tumors risk.
PMID: 26372813
Oncotarget · 2015
0.80
5
Methylation, Gene Expression, and Risk Genotypes at the TERT-CLPTM1L Locus in Cervical Cancer.
PMID: 39352309
Mol Carcinog · 2025
0.70