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6 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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SCYL3
SCY1 like pseudokinase 3
Chromosome 1 · 1q24.2
NCBI Gene: 57147Ensembl: ENSG00000000457.15HGNC: HGNC:19285UniProt: Q8IZE3
42PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
FUNCTIONAL ROLE
Kinase
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
kinase activityprotein bindingGolgi apparatuscytosoldeep vein thrombosissmoking initiationatrial fibrillationinjury
✦AI Summary

SCYL3 (SCY1-like pseudokinase 3) is a conserved pseudokinase that regulates intracellular trafficking and cell migration pathways. Functionally, SCYL3 acts as a component of COPI-mediated Golgi trafficking machinery, working in concert with COPI coat proteins to regulate Golgi morphology and protein glycosylation 1. In migrating cells, SCYL3 localizes to lamellipodia and interacts with ezrin to regulate cell adhesion and migration complexes 2. Mechanistically, SCYL3 functions through protein-protein interactions; notably, it physically binds ROCK2 (Rho kinase 2) and regulates its stability and transactivating activity, promoting actin stress fiber and focal adhesion formation 3. SCYL3 also maintains motor neuron viability through overlapping redundancy with SCYL1, regulating TDP-43 proteostasis to prevent neurodegeneration 4. Clinically, SCYL3 is overexpressed in hepatocellular carcinoma and associated with worse patient survival and metastasis 3. Additionally, genetic variants in SCYL3 are associated with cardioembolic stroke susceptibility in oligodendrocytes 5. SCYL3 also serves as a gene biomarker for distinguishing Zika from Dengue virus infections in computational models 6. Together, these findings establish SCYL3 as a multifunctional regulator with implications for cancer progression, neurodegeneration, and viral disease pathophysiology.

Sources cited
1
SCYL3 regulates Golgi morphology and protein glycosylation in concert with COPI machinery
PMID: 33753324
2
SCYL3 (PACE-1) interacts with ezrin and may regulate cell adhesion/migration complexes in migrating cells
PMID: 12651155
3
SCYL3 is overexpressed in hepatocellular carcinoma, associated with worse survival, binds and regulates ROCK2 stability to promote actin stress fibers and focal adhesion formation
PMID: 36440258
4
SCYL3 works with SCYL1 to maintain motor neuron viability and regulate TDP-43 proteostasis
PMID: 29437892
5
SCYL3 genetic variants are associated with cardioembolic stroke susceptibility in oligodendrocytes
PMID: 38744227
6
SCYL3 identified as gene biomarker for distinguishing Zika and Dengue virus infections using machine learning
PMID: 39464736
Disease Associationsⓘ20
deep vein thrombosisOpen Targets
0.37Weak
smoking initiationOpen Targets
0.35Weak
atrial fibrillationOpen Targets
0.30Weak
injuryOpen Targets
0.28Weak
Alzheimer diseaseOpen Targets
0.26Weak
lysosomal storage diseaseOpen Targets
0.26Weak
multiple sclerosisOpen Targets
0.26Weak
neurodegenerative diseaseOpen Targets
0.26Weak
Parkinson diseaseOpen Targets
0.26Weak
neoplasmOpen Targets
0.07Suggestive
hepatocellular carcinomaOpen Targets
0.07Suggestive
exercise intolerance, riboflavin-responsiveOpen Targets
0.07Suggestive
Distal myopathy, Nonaka typeOpen Targets
0.06Suggestive
myopathy, distal, 5Open Targets
0.06Suggestive
Abruptio PlacentaeOpen Targets
0.05Suggestive
GNE myopathyOpen Targets
0.05Suggestive
tibial muscular dystrophyOpen Targets
0.05Suggestive
myopathy, distal, 6, adult-onset, autosomal dominantOpen Targets
0.05Suggestive
myofibrillar myopathy 3Open Targets
0.05Suggestive
Becker muscular dystrophyOpen Targets
0.05Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
AVL9Shared pathway100%CD248Shared pathway100%TMEM18Shared pathway100%EZRProtein interaction87%MAS1Shared pathway50%GRAPLShared pathway50%
Tissue Expression6 tissues
Liver
100%
Ovary
80%
Brain
63%
Lung
63%
Heart
63%
Bone Marrow
34%
Gene Interaction Network
Click a node to explore
SCYL3AVL9CD248TMEM18EZRMAS1GRAPL
PROTEIN STRUCTURE
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AlphaFoldAI-predicted · UniProt Q8IZE3
View on AlphaFold ↗
Constraintⓘ
LOEUFⓘ
0.67LoF Tolerant
pLIⓘ
0.00Tolerant
Observed/Expected LoF0.49 [0.36–0.67]
RankingsWhere SCYL3 stands among ~20K protein-coding genes
  • #9,939of 20,598
    Most Researched42
  • #4,890of 17,882
    Most Constrained (LOEUF)0.67
Genes detectedSCYL3
Sources retrieved6 papers
Response time—
📄 Sources
6▼
1
Cex1 is a component of the COPI intracellular trafficking machinery.
PMID: 33753324
Biol Open · 2021
1.00
2
SCYL3, as a novel binding partner and regulator of ROCK2, promotes hepatocellular carcinoma progression.
PMID: 36440258
JHEP Rep · 2023
0.83
3
Bayesian colocalization of GWAS and eQTL signals reveals cell type-specific genes and regulatory variants for susceptibility to subtypes of ischemic stroke.
PMID: 38744227
Comput Biol Chem · 2024
0.67
4
Machine learning-based gene expression biomarkers to distinguish Zika and Dengue virus infections: implications for diagnosis.
PMID: 39464736
Virusdisease · 2024
0.50
5
Overlapping Role of SCYL1 and SCYL3 in Maintaining Motor Neuron Viability.
PMID: 29437892
J Neurosci · 2018
0.33