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10 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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SLC38A9
solute carrier family 38 member 9
Chromosome 5 · 5q11.2
NCBI Gene: 153129Ensembl: ENSG00000177058.12HGNC: HGNC:26907UniProt: B3KVK8
36PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
FUNCTIONAL ROLE
Transporter
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
Ragulator complexguanyl-nucleotide exchange factor activityprotein bindingamino acid transmembrane transporter activityneurodegenerative diseasealcohol drinkingAlzheimer diseasebenign neoplasm of skin
✦AI Summary

SLC38A9 is a lysosomal transmembrane protein that functions as a critical amino acid sensor and transporter in the mTORC1 signaling pathway. The protein serves as an arginine sensor that activates mTORC1 by binding arginine and interacting with Rag GTPases and Ragulator complex at the lysosomal surface 12. SLC38A9 transports essential amino acids, particularly leucine, glutamine, and tyrosine, out of lysosomes in an arginine-regulated fashion, enabling cells to utilize amino acids generated from lysosomal protein degradation 2. Beyond amino acid sensing, SLC38A9 also functions as a cholesterol sensor, conveying increases in lysosomal cholesterol to activate mTORC1 through conserved cholesterol-responsive motifs, working in conjunction with the NPC1 protein 3. The protein acts as a guanine exchange factor (GEF), stimulating GDP release from RRAGA upon arginine binding to activate the Rag GTPase heterodimer 4. SLC38A9 is essential for the lysosomal recruitment of GATOR1, GATOR2, and KICSTOR complexes, establishing it as a central organizer of the mTORC1 nutrient-sensing pathway architecture 5. This multifunctional role makes SLC38A9 a potential therapeutic target, particularly in cancer cells that depend on protein catabolism for growth 26.

Sources cited
1
SLC38A9 is a lysosomal transmembrane protein that interacts with Rag GTPases and Ragulator and functions as an arginine sensor for mTORC1
PMID: 25567906
2
SLC38A9 mediates arginine-regulated transport of essential amino acids out of lysosomes and is required for mTORC1 activation by leucine
PMID: 29053970
3
SLC38A9 functions as a cholesterol sensor that activates mTORC1 through conserved cholesterol-responsive motifs in conjunction with NPC1
PMID: 28336668
4
SLC38A9 acts as a guanine exchange factor that stimulates GDP release from RRAGA upon arginine binding
PMID: 30181260
5
SLC38A9 is essential for lysosomal recruitment of GATOR complexes and serves as central organizer of mTORC1 pathway architecture
PMID: 39163330
6
SLC38A9 represents a potential therapeutic target for precision cancer therapy through mTORC1 inhibition
PMID: 40613244
Disease Associationsⓘ20
neurodegenerative diseaseOpen Targets
0.33Weak
alcohol drinkingOpen Targets
0.31Weak
Alzheimer diseaseOpen Targets
0.29Weak
benign neoplasm of skinOpen Targets
0.07Suggestive
placenta praeviaOpen Targets
0.06Suggestive
esophageal diseaseOpen Targets
0.04Suggestive
Insulin resistanceOpen Targets
0.03Suggestive
hereditary ataxiaOpen Targets
0.03Suggestive
cartilage diseaseOpen Targets
0.02Suggestive
vascular diseaseOpen Targets
0.02Suggestive
intestinal diseaseOpen Targets
0.02Suggestive
acute myeloid leukemiaOpen Targets
0.01Suggestive
urinary bladder carcinomaOpen Targets
0.01Suggestive
rheumatoid arthritisOpen Targets
0.01Suggestive
type 2 diabetes mellitusOpen Targets
0.01Suggestive
complicationOpen Targets
0.01Suggestive
lung adenocarcinomaOpen Targets
0.01Suggestive
obesityOpen Targets
0.01Suggestive
neoplasmOpen Targets
0.01Suggestive
cancerOpen Targets
0.00Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
EFNA5Protein interaction100%LARS2Protein interaction100%LARS1Protein interaction100%FNIP2Protein interaction100%MTORProtein interaction99%RPTORProtein interaction97%
Tissue Expression6 tissues
Liver
100%
Ovary
55%
Lung
47%
Bone Marrow
44%
Brain
34%
Heart
30%
Gene Interaction Network
Click a node to explore
SLC38A9EFNA5LARS2LARS1FNIP2MTORRPTOR
PROTEIN STRUCTURE
Preparing viewer…
PDB6WJ2 · 3.20 Å · EM
View on RCSB ↗
Constraintⓘ
LOEUFⓘ
1.02LoF Tolerant
pLIⓘ
0.00Tolerant
Observed/Expected LoF0.74 [0.54–1.02]
RankingsWhere SLC38A9 stands among ~20K protein-coding genes
  • #10,868of 20,598
    Most Researched36
  • #9,939of 17,882
    Most Constrained (LOEUF)1.02
Genes detectedSLC38A9
Sources retrieved10 papers
Response time—
📄 Sources
10▼
1
Lysosomal cholesterol activates mTORC1 via an SLC38A9-Niemann-Pick C1 signaling complex.
PMID: 28336668
Science · 2017
1.00
2
TFEB-driven endocytosis coordinates MTORC1 signaling and autophagy.
PMID: 30145926
Autophagy · 2019
0.90
3
mTORC1 Activator SLC38A9 Is Required to Efflux Essential Amino Acids from Lysosomes and Use Protein as a Nutrient.
PMID: 29053970
Cell · 2017
0.80
4
The CASTOR Proteins Are Arginine Sensors for the mTORC1 Pathway.
PMID: 26972053
Cell · 2016
0.70
5
Metabolism. Lysosomal amino acid transporter SLC38A9 signals arginine sufficiency to mTORC1.
PMID: 25567906
Science · 2015
0.60