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10 sources retrieved Β· Most recent: April 2026 Β· Index updated 15 days ago
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THUMPD1
THUMP domain 1 NAT10 acetyltransferase adaptor
Chromosome 16 Β· 16p12.3
NCBI Gene: 55623Ensembl: ENSG00000066654.15HGNC: HGNC:23807UniProt: Q9NXG2
44PubMed Papers
21Diseases
0Drugs
8Pathogenic Variants
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
RNA bindingprotein bindingtRNA modificationnucleoplasmneurodevelopmental disorder with speech delay and variable ocular anomaliesNeurodevelopmental disordergenetic disorderneurodegenerative disease
✦AI Summary

THUMPD1 (THUMP domain 1 NAT10 acetyltransferase adaptor) functions as a tRNA-binding adapter protein that mediates NAT10-dependent acetylation of cytidine to N4-acetylcytidine (ac4C) on transfer RNAs 1. Beyond tRNA modification, THUMPD1 facilitates NAT10-catalyzed ac4C modification of primary microRNAs, enhancing their processing into mature miRNAs by promoting DGCR8 interaction 2. Mechanistically, ac4C12 modification on tRNAs improves aminoacylation efficiency and translational fidelity, particularly for Ser/Leu-containing codons 3. Loss of THUMPD1-dependent tRNA acetylation reduces tRNA aminoacylation, causes ribosome stalling, and activates eIF2Ξ± phosphorylation stress signaling 4. Additionally, THUMPD1 promotes breast cancer cell invasion and metastasis through AKT-GSK3Ξ²-Snail pathway activation, with cytosolic (but not nuclear) expression correlating with advanced cancer stage and poor prognosis 5. Clinically, THUMPD1 mutations cause neurodevelopmental disorders with speech delay and variable ocular anomalies 6. Thumpd1 knockout mice exhibit growth defects and sterility, while concurrent Thumpd1/Gcn2 deletion causes penetrant postnatal lethality, indicating critical roles in mammalian development 4. The gene has been confirmed as causative of intellectual disability in consanguineous populations 7.

Sources cited
1
THUMPD1 serves as a conserved adapter protein enabling NAT10-catalyzed tRNA acetylation at cytosine residues
PMID: 25653167
2
THUMPD1-dependent tRNA acetylation regulates ribosome stress signaling; Thumpd1 knockout causes growth defects and sterility
PMID: 40106564
3
NAT10/THUMPD1 catalyzes ac4C modification on primary microRNAs to enhance their processing and mature miRNA biogenesis in cancer
PMID: 38308713
4
ac4C12 modification by THUMPD1 pathway improves tRNA aminoacylation and translation efficiency, particularly for Ser/Leu codons
PMID: 40595590
5
Cytosolic THUMPD1 promotes breast cancer invasion and metastasis via AKT-GSK3Ξ²-Snail pathway; expression correlates with poor prognosis
PMID: 28076326
6
THUMPD1 variants identified in consanguineous families with intellectual disability and developmental delay
PMID: 36344539
7
THUMPD1 confirmed as a disease gene through autozygome analysis in patients with compatible Mendelian phenotypes
PMID: 30237576
Disease Associationsβ“˜21
neurodevelopmental disorder with speech delay and variable ocular anomaliesOpen Targets
0.69Moderate
Neurodevelopmental disorderOpen Targets
0.52Moderate
genetic disorderOpen Targets
0.34Weak
neurodegenerative diseaseOpen Targets
0.30Weak
insomniaOpen Targets
0.08Suggestive
cancerOpen Targets
0.08Suggestive
breast cancerOpen Targets
0.06Suggestive
neoplasmOpen Targets
0.04Suggestive
Abruptio PlacentaeOpen Targets
0.03Suggestive
gastric cancerOpen Targets
0.02Suggestive
lymph node metastatic carcinomaOpen Targets
0.01Suggestive
endometrial cancerOpen Targets
0.01Suggestive
lung adenocarcinomaOpen Targets
0.01Suggestive
chronic obstructive pulmonary diseaseOpen Targets
0.01Suggestive
ataxia telangiectasiaOpen Targets
0.01Suggestive
adrenal cortex carcinomaOpen Targets
0.01Suggestive
Alzheimer diseaseOpen Targets
0.01Suggestive
bladder transitional cell carcinomaOpen Targets
0.01Suggestive
cervical squamous cell carcinomaOpen Targets
0.01Suggestive
breast carcinomaOpen Targets
0.00Suggestive
Neurodevelopmental disorder with speech delay and variable ocular anomaliesUniProt
Pathogenic Variants8
NM_017736.5(THUMPD1):c.634dup (p.Glu212fs)Pathogenic
Neurodevelopmental disorder|Neurodevelopmental disorder with speech delay and variable ocular anomalies
β˜…β˜…β˜†β˜†2023β†’ Residue 212
NM_017736.5(THUMPD1):c.290del (p.Ala97fs)Pathogenic
Neurodevelopmental disorder with speech delay and variable ocular anomalies
β˜…β˜†β˜†β˜†2023β†’ Residue 97
NM_017736.5(THUMPD1):c.341T>G (p.Leu114Ter)Pathogenic
Neurodevelopmental disorder
β˜…β˜†β˜†β˜†2021β†’ Residue 114
NM_017736.5(THUMPD1):c.303_306del (p.Glu102fs)Pathogenic
Neurodevelopmental disorder|Neurodevelopmental disorder with speech delay and variable ocular anomalies
β˜…β˜†β˜†β˜†2021β†’ Residue 102
NM_017736.5(THUMPD1):c.771GTT[1] (p.Leu258del)Likely pathogenic
Neurodevelopmental disorder|Neurodevelopmental disorder with speech delay and variable ocular anomalies
β˜…β˜†β˜†β˜†2021β†’ Residue 258
NM_017736.5(THUMPD1):c.490C>T (p.Pro164Ser)Pathogenic
Neurodevelopmental disorder
β˜…β˜†β˜†β˜†2021β†’ Residue 164
NM_017736.5(THUMPD1):c.469C>T (p.Arg157Ter)Pathogenic
Neurodevelopmental disorder
β˜…β˜†β˜†β˜†2021β†’ Residue 157
NM_017736.5(THUMPD1):c.495dup (p.Ser166fs)Pathogenic
Neurodevelopmental disorder|Neurodevelopmental disorder with speech delay and variable ocular anomalies
β˜…β˜†β˜†β˜†2021β†’ Residue 166
View on ClinVar β†—
Related Genes
WDR4Shared pathway100%ANKRD16Shared pathway100%DTWD2Shared pathway100%QNG1Shared pathway100%QTRT1Shared pathway100%QTRT2Shared pathway100%
Tissue Expression6 tissues
Bone Marrow
100%
Ovary
76%
Brain
47%
Heart
44%
Liver
44%
Lung
43%
Gene Interaction Network
Click a node to explore
THUMPD1WDR4ANKRD16DTWD2QNG1QTRT1QTRT2
PROTEIN STRUCTURE
Preparing viewer…
PDB2DIR Β· NMR
View on RCSB β†—
Constraintβ“˜
LOEUFβ“˜
1.41LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF1.04 [0.78–1.41]
RankingsWhere THUMPD1 stands among ~20K protein-coding genes
  • #9,665of 20,598
    Most Researched44
  • #3,102of 5,498
    Most Pathogenic Variants8
  • #14,576of 17,882
    Most Constrained (LOEUF)1.41
Genes detectedTHUMPD1
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Autozygome and high throughput confirmation of disease genes candidacy.
PMID: 30237576
Genet Med Β· 2019
1.00
2
Transfer RNA acetylation regulates in vivo mammalian stress signaling.
PMID: 40106564
Sci Adv Β· 2025
0.90
3
The diagnostic yield, candidate genes, and pitfalls for a genetic study of intellectual disability in 118 middle eastern families.
PMID: 36344539
Sci Rep Β· 2022
0.80
4
N4-acetylcytidine modifies primary microRNAs for processing in cancer cells.
PMID: 38308713
Cell Mol Life Sci Β· 2024
0.70
5
Dynamic RNA acetylation revealed by quantitative cross-evolutionary mapping.
PMID: 32555463
Nature Β· 2020
0.60