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GeneE
10 sources retrieved Β· Most recent: April 2026 Β· Index updated 14 days ago
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UBE3B
ubiquitin protein ligase E3B
Chromosome 12 Β· 12q24.11
NCBI Gene: 89910Ensembl: ENSG00000151148.15HGNC: HGNC:13478UniProt: Q7Z3V4
43PubMed Papers
21Diseases
0Drugs
68Pathogenic Variants
RESEARCH IMPACT
Variant-Rich
CLINICAL
OMIM Disease Gene
DATA QUALITY
βœ“ Experimental GO Evidenceβœ“ Swiss-Prot Reviewed
ubiquitin protein ligase activitymitochondrionprotein bindingprotein polyubiquitinationoculocerebrofacial syndrome, Kaufman typegenetic disorderangina pectorisBlepharophimosis-intellectual disability syndrome due to UBE3B deficiency
✦AI Summary

UBE3B is a HECT-domain E3 ubiquitin ligase located on chromosome 12.1 that catalyzes K63-linked polyubiquitination of target proteins 1. The enzyme functions as a mitochondrion-associated protein regulated by calmodulin through its N-terminal IQ motif, with calcium signaling modulating its activity 2. UBE3B ubiquitinates branched-chain Ξ±-ketoacid dehydrogenase kinase (BCKDK), regulating metabolic pathways including nucleotide metabolism and the tricarboxylic acid cycle 3. In cancer contexts, UBE3B promotes breast tumor growth by preventing VHL-mediated HIF-2Ξ± degradation through K63-linked polyubiquitination at lysine residues 394, 497, and 503 4, though VHL reciprocally targets UBE3B for K48-linked polyubiquitination and proteasomal degradation 5. Biallelic UBE3B mutations cause Kaufman oculocerebrofacial syndrome (KOS), an autosomal-recessive neurodevelopmental disorder featuring intellectual disability, developmental delay, growth retardation, and low cholesterol levels 6. Loss of UBE3B in mice recapitulates KOS pathology, including corpus callosum hypoplasia, abnormal dendritic morphology, and altered mitochondrial respiration 3. Recent evidence associates rare UBE3B variants with age-related hearing loss 7, broadening its clinical relevance beyond neurometabolic disease.

Sources cited
1
UBE3B is a HECT-domain E3 ubiquitin ligase on chromosome 12q24.1 with alternative splicing generating functional and non-functional variants
PMID: 12837265
2
UBE3B is a mitochondrion-associated protein regulated by calmodulin via its IQ motif, with calcium modulating its ubiquitylation activity
PMID: 28003368
3
UBE3B ubiquitinates BCKDK and regulates metabolic pathways; UBE3B mutations cause KOS with neurological and metabolic abnormalities in mice and humans
PMID: 30808755
4
UBE3B promotes breast cancer progression by K63-linked polyubiquitination of HIF-2Ξ± at K394, K497, K503, preventing VHL-mediated degradation
PMID: 37783786
5
VHL targets UBE3B for K48-linked polyubiquitination at K286 and K427, promoting its proteasomal degradation in a PHD-independent manner
PMID: 38914543
6
Biallelic UBE3B mutations cause blepharophimosis-ptosis-intellectual-disability syndrome (KOS) with developmental delay, growth retardation, and reduced brain size
PMID: 23200864
7
Rare UBE3B variants are associated with age-related hearing loss in addition to syndromic hearing loss
PMID: 40055553
Disease Associationsβ“˜21
oculocerebrofacial syndrome, Kaufman typeOpen Targets
0.81Strong
genetic disorderOpen Targets
0.49Moderate
angina pectorisOpen Targets
0.42Moderate
Blepharophimosis-intellectual disability syndrome due to UBE3B deficiencyOpen Targets
0.37Weak
blepharophimosis - intellectual disability syndromeOpen Targets
0.34Weak
cataractOpen Targets
0.29Weak
coronary artery diseaseOpen Targets
0.29Weak
physical activityOpen Targets
0.28Weak
alcohol drinkingOpen Targets
0.27Weak
myocardial infarctionOpen Targets
0.25Weak
hearing lossOpen Targets
0.24Weak
age-related hearing impairmentOpen Targets
0.23Weak
AnxietyOpen Targets
0.23Weak
cardiac arrhythmiaOpen Targets
0.22Weak
Alzheimer diseaseOpen Targets
0.20Weak
polydactylyOpen Targets
0.18Weak
Intellectual disabilityOpen Targets
0.15Weak
neurotic disorderOpen Targets
0.14Weak
IrritabilityOpen Targets
0.12Weak
mood disorderOpen Targets
0.11Weak
Kaufman oculocerebrofacial syndromeUniProt
Pathogenic Variants68
NM_130466.4(UBE3B):c.61G>T (p.Glu21Ter)Pathogenic
Inborn genetic diseases|not provided|Oculocerebrofacial syndrome, Kaufman type
β˜…β˜…β˜†β˜†2025β†’ Residue 21
NM_130466.4(UBE3B):c.2990G>C (p.Arg997Pro)Pathogenic
Inborn genetic diseases|Oculocerebrofacial syndrome, Kaufman type
β˜…β˜…β˜†β˜†2025β†’ Residue 997
NM_130466.4(UBE3B):c.1956+1G>APathogenic
Inborn genetic diseases|Oculocerebrofacial syndrome, Kaufman type|not provided
β˜…β˜…β˜†β˜†2025
NM_130466.4(UBE3B):c.1165dup (p.Trp389fs)Pathogenic
not provided|Oculocerebrofacial syndrome, Kaufman type
β˜…β˜…β˜†β˜†2025β†’ Residue 389
NM_130466.4(UBE3B):c.730C>T (p.Gln244Ter)Pathogenic
not provided|Oculocerebrofacial syndrome, Kaufman type
β˜…β˜…β˜†β˜†2025β†’ Residue 244
NM_130466.4(UBE3B):c.1376dup (p.Val460fs)Pathogenic
not provided
β˜…β˜…β˜†β˜†2025β†’ Residue 460
NM_130466.4(UBE3B):c.2172dup (p.Ile725fs)Pathogenic
Oculocerebrofacial syndrome, Kaufman type|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 725
NM_130466.4(UBE3B):c.351T>G (p.Tyr117Ter)Pathogenic
Oculocerebrofacial syndrome, Kaufman type|not provided
β˜…β˜…β˜†β˜†2024β†’ Residue 117
NM_130466.4(UBE3B):c.343-1G>APathogenic
Oculocerebrofacial syndrome, Kaufman type
β˜…β˜…β˜†β˜†2024
NM_130466.4(UBE3B):c.1742-2A>GPathogenic
not provided
β˜…β˜…β˜†β˜†2023
NM_130466.4(UBE3B):c.1852C>T (p.Arg618Ter)Pathogenic
not provided|Oculocerebrofacial syndrome, Kaufman type
β˜…β˜…β˜†β˜†2023β†’ Residue 618
NM_130466.4(UBE3B):c.711dup (p.Arg238fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2026β†’ Residue 238
NM_130466.4(UBE3B):c.1156C>T (p.Gln386Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 386
NM_130466.4(UBE3B):c.2810+2_2810+5delLikely pathogenic
not provided
β˜…β˜†β˜†β˜†2025
NM_130466.4(UBE3B):c.2T>C (p.Met1Thr)Likely pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 1
NM_130466.4(UBE3B):c.1451-153_1516delinsGTTAAAGAALikely pathogenic
not provided
β˜…β˜†β˜†β˜†2025
NM_130466.4(UBE3B):c.161+1G>APathogenic
not provided
β˜…β˜†β˜†β˜†2025
NM_130466.4(UBE3B):c.2254-2A>TPathogenic
not provided
β˜…β˜†β˜†β˜†2025
NM_130466.4(UBE3B):c.154_155del (p.Asp52fs)Pathogenic
not provided
β˜…β˜†β˜†β˜†2025β†’ Residue 52
NM_130466.4(UBE3B):c.58C>T (p.Arg20Ter)Pathogenic
not provided
β˜…β˜†β˜†β˜†2024β†’ Residue 20
View on ClinVar β†—
Related Genes
TRPV4Protein interaction80%ATP2B1Protein interaction78%ZNF18Protein interaction72%RNF114Shared pathway67%RNF166Shared pathway67%UBE4AShared pathway50%
Tissue Expression6 tissues
Heart
100%
Ovary
57%
Lung
51%
Liver
50%
Brain
40%
Bone Marrow
28%
Gene Interaction Network
Click a node to explore
UBE3BTRPV4ATP2B1ZNF18RNF114RNF166UBE4A
PROTEIN STRUCTURE
Preparing viewer…
AlphaFoldAI-predicted Β· UniProt Q7Z3V4
View on AlphaFold β†—
Constraintβ“˜
LOEUFβ“˜
0.68LoF Tolerant
pLIβ“˜
0.00Tolerant
Observed/Expected LoF0.55 [0.46–0.68]
RankingsWhere UBE3B stands among ~20K protein-coding genes
  • #9,815of 20,598
    Most Researched43
  • #1,071of 5,498
    Most Pathogenic Variants68 Β· top quartile
  • #4,994of 17,882
    Most Constrained (LOEUF)0.68
Genes detectedUBE3B
Sources retrieved10 papers
Response timeβ€”
πŸ“„ Sources
10β–Ό
1
Characterization of the human UBE3B gene: structure, expression, evolution, and alternative splicing.
PMID: 12837265
Genomics Β· 2003
1.00
2
UBE3B promotes breast cancer progression by antagonizing HIF-2Ξ± degradation.
PMID: 37783786
Oncogene Β· 2023
0.90
3
Re-analysis of whole-exome sequencing data uncovers novel diagnostic variants and improves molecular diagnostic yields for sudden death and idiopathic diseases.
PMID: 31847883
Genome Med Β· 2019
0.80
4
VHL suppresses UBE3B-mediated breast tumor growth and metastasis.
PMID: 38914543
Cell Death Dis Β· 2024
0.70
5
UBE3B Is a Calmodulin-regulated, Mitochondrion-associated E3 Ubiquitin Ligase.
PMID: 28003368
J Biol Chem Β· 2017
0.60