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10 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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UTP3
UTP3 small subunit processome component
Chromosome 4 · 4q13.3
NCBI Gene: 57050Ensembl: ENSG00000132467.4HGNC: HGNC:24477UniProt: Q9NQZ2
91PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
FUNCTIONAL ROLE
Hub Gene
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
RNA bindingprotein bindingribosomal small subunit biogenesisnucleolusAbnormality of the skeletal systemplacental retentiongastric cancerosteosarcoma
✦AI Summary

UTP3 is an essential nucleolar protein and core component of the small subunit (SSU) processome, a large ribonucleoprotein complex that mediates ribosomal small subunit biogenesis 1. UTP3 functions primarily in 18S rRNA maturation and processing through its role in the SSU processome, which orchestrates pre-rRNA folding, modification, cleavage, and targeted degradation by the RNA exosome 1. Beyond ribosome biogenesis, UTP3 serves a 'ferrying' function, facilitating nucleolar localization of multiple SSU processome components (MPP10, UTP25, EMG1, UTP12, UTP13) through interaction with nuclear importin α, and recruits the RNA exosome component EXOSC10 to degrade aberrantly processed 5'ETS products 1. Clinically, UTP3 dysregulation is implicated in multiple cancers. In hepatocellular carcinoma, elevated UTP3 independently predicts poor survival (HR=1.574, p=0.007) and associates with immunosuppressive features and NF-κB pathway activation 2. In esophageal squamous cell carcinoma, the lncRNA HCP5 stabilizes UTP3 against TRIM29-mediated ubiquitination, enabling UTP3 to recruit c-Myc and suppress caspase-dependent apoptosis, promoting chemoresistance 3. UTP3 also appears upregulated in colorectal cancer and osteosarcoma with prognostic significance 45.

Sources cited
1
UTP3 is a nucleolar protein that facilitates SSU processome component localization, mediates 5'ETS processing, and recruits RNA exosome components for pre-rRNA degradation
PMID: 39036955
2
UTP3 is elevated in hepatocellular carcinoma, independently predicts poor overall survival, and associates with immunosuppression and NF-κB signaling
PMID: 41334623
3
HCP5 lncRNA stabilizes UTP3 against TRIM29-mediated ubiquitination, enabling UTP3 to activate c-Myc and suppress apoptosis in esophageal squamous cell carcinoma chemoresistance
PMID: 36245126
4
UTP3 is identified as a hub gene and small subunit processome component upregulated in colorectal cancer
PMID: 29658574
5
UTP3 is a seed gene in dynamic modules enriched in ubiquitin-mediated proteolysis and ribosome pathways associated with osteosarcoma progression
PMID: 28586048
Disease Associationsⓘ20
Abnormality of the skeletal systemOpen Targets
0.02Suggestive
placental retentionOpen Targets
0.02Suggestive
gastric cancerOpen Targets
0.02Suggestive
osteosarcomaOpen Targets
0.01Suggestive
lymphomaOpen Targets
0.01Suggestive
hepatocellular carcinomaOpen Targets
0.01Suggestive
acute myeloid leukemiaOpen Targets
0.01Suggestive
mitochondrial DNA depletion syndrome 13Open Targets
0.01Suggestive
neoplasmOpen Targets
0.01Suggestive
cancerOpen Targets
0.01Suggestive
colorectal carcinomaOpen Targets
0.01Suggestive
infectionOpen Targets
0.00Suggestive
fungal infectious diseaseOpen Targets
0.00Suggestive
migraine disorderOpen Targets
0.00Suggestive
Parkinson diseaseOpen Targets
0.00Suggestive
prostate cancerOpen Targets
0.00Suggestive
systemic lupus erythematosusOpen Targets
0.00Suggestive
visceral LeishmaniasisOpen Targets
0.00Suggestive
colorectal cancerOpen Targets
0.00Suggestive
esophageal squamous cell carcinomaOpen Targets
0.00Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
DHX15Protein interaction100%MCCProtein interaction100%NOP14Protein interaction100%DDX52Protein interaction100%KRR1Protein interaction100%PDCD11Protein interaction100%
Tissue Expression6 tissues
Liver
100%
Heart
94%
Brain
93%
Bone Marrow
85%
Lung
80%
Ovary
55%
Gene Interaction Network
Click a node to explore
UTP3DHX15MCCNOP14DDX52KRR1PDCD11
PROTEIN STRUCTURE
Preparing viewer…
PDB7MQA · 2.70 Å · EM
View on RCSB ↗
Constraintⓘ
LOEUFⓘ
0.69LoF Tolerant
pLIⓘ
0.02Tolerant
Observed/Expected LoF0.47 [0.33–0.69]
RankingsWhere UTP3 stands among ~20K protein-coding genes
  • #5,278of 20,598
    Most Researched91
  • #5,252of 17,882
    Most Constrained (LOEUF)0.69
Genes detectedUTP3
Sources retrieved10 papers
Response time—
📄 Sources
10▼
1
HCP5 prevents ubiquitination-mediated UTP3 degradation to inhibit apoptosis by activating c-Myc transcriptional activity.
PMID: 36245126
Mol Ther · 2023
1.00
2
Sas10 controls ribosome biogenesis by stabilizing Mpp10 and delivering the Mpp10-Imp3-Imp4 complex to nucleolus.
PMID: 30773582
Nucleic Acids Res · 2019
0.90
3
A UTP3-dependent nucleolar translocation pathway facilitates pre-rRNA 5'ETS processing.
PMID: 39036955
Nucleic Acids Res · 2024
0.80
4
UTP3: A Prognostic Marker in Hepatocellular Carcinoma and Its Role in Immunity and Epigenetics.
PMID: 41334623
J Biochem Mol Toxicol · 2025
0.70
5
The DEAD-box RNA helicase-like Utp25 is an SSU processome component.
PMID: 20884785
RNA · 2010
0.60