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GeneE
27 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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CBX3
chromobox 3
Chromosome 7 · 7p15.2
NCBI Gene: 11335Ensembl: ENSG00000122565.19HGNC: HGNC:1553UniProt: A4D177
336PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
FUNCTIONAL ROLE
Hub GeneTranscription Factor
RESEARCH IMPACT
Highly StudiedTrending
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
nucleoplasmspindlenuclear bodysite of DNA damageneoplasmlung adenocarcinomacancercolorectal carcinoma
✦AI Summary

CBX3 (chr7 3) is a heterochromatin protein that functions as an epigenetic regulator recognizing histone H3 methylated at lysine-9 (H3K9me3) and histone H1.4 methylated at lysine-26, leading to transcriptional repression 1. CBX3 contributes to heterochromatin formation and kinetochore assembly through interactions with chr7-modifying complexes 2. Beyond canonical chr7 binding, CBX3 binds histone acetyltransferase EP300 to modulate substrate specificity toward lactyl-CoA, driving immunosuppressive gene expression in glioblastoma 3. CBX3 also regulates DNA replication fork dynamics by binding RPA2, with phosphorylation by CK2 kinase controlling replication restart 4. Additionally, lactylation of CBX3 at lysine-10 enhances its interaction with H3K9me3, facilitating gastrointestinal cancer progression 5. Clinically, elevated CBX3 expression correlates with poor prognosis across multiple cancers, including significantly worse overall survival (HR=1.95) 6. CBX3 promotes multidrug resistance in colorectal cancer by suppressing ferroptosis through the CUL3/NRF2/GPX2 axis 7. In prostate cancer, CBX3 is upregulated by BRD4 and modulates CDK4/6 inhibitor sensitivity through RB1-E2F1 interactions 8. These findings establish CBX3 as a multifunctional epigenetic regulator contributing to cancer progression, therapeutic resistance, and immune evasion.

Sources cited
1
CBX3 recognizes and binds histone H3 methylated at lysine-9, leading to epigenetic repression
PMID: 11242053
2
CBX3 is involved in kinetochore formation through interaction with MIS12 complex proteins
PMID: 15502821
3
CBX3 binds EP300 to enhance substrate specificity toward lactyl-CoA, driving immunosuppressive transcription in glioblastoma
PMID: 39545414
4
CBX3 binds RPA2 to regulate replication fork stalling; CK2 phosphorylation at serine-95 promotes CBX3 degradation and replication fork restart
PMID: 38781342
5
Lactylation of CBX3 at lysine-10 enhances interaction with H3K9me3 and facilitates gastrointestinal cancer progression
PMID: 39018247
6
High CBX3 expression is associated with poor overall survival (HR=1.95) and lymph node metastasis across multiple cancer types
PMID: 33273987
7
CBX3 promotes multidrug resistance in colorectal cancer by suppressing ferroptosis via the CUL3/NRF2/GPX2 axis
PMID: 40089640
8
CBX3 is transcriptionally upregulated by BRD4 in prostate cancer and modulates CDK4/6 inhibitor sensitivity through RB1-E2F1 interactions
PMID: 37949681
Disease Associationsⓘ20
neoplasmOpen Targets
0.12Weak
lung adenocarcinomaOpen Targets
0.10Weak
cancerOpen Targets
0.10Weak
colorectal carcinomaOpen Targets
0.10Suggestive
hepatocellular carcinomaOpen Targets
0.10Suggestive
nonpapillary renal cell carcinomaOpen Targets
0.10Suggestive
azoospermiaOpen Targets
0.09Suggestive
gastric cancerOpen Targets
0.09Suggestive
osteosarcomaOpen Targets
0.08Suggestive
pancreatic adenocarcinomaOpen Targets
0.08Suggestive
melanomaOpen Targets
0.08Suggestive
partial chromosome Y deletionOpen Targets
0.08Suggestive
Female infertility due to fertilization defectOpen Targets
0.08Suggestive
Rare genetic female infertilityOpen Targets
0.08Suggestive
ovarian cancerOpen Targets
0.07Suggestive
Male infertility with spermatogenesis disorder due to single gene mutationOpen Targets
0.07Suggestive
spermatogenic failure, X-linked, 2Open Targets
0.07Suggestive
breast cancerOpen Targets
0.07Suggestive
spermatogenic failure 48Open Targets
0.07Suggestive
spermatogenic failure 74Open Targets
0.07Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
RPS6KA5Protein interaction100%TRIM66Protein interaction100%KDM5BProtein interaction100%H3-5Protein interaction100%H3C13Protein interaction100%E2F6Protein interaction99%
Tissue Expression6 tissues
Bone Marrow
100%
Brain
65%
Heart
46%
Ovary
42%
Lung
41%
Liver
36%
Gene Interaction Network
Click a node to explore
CBX3RPS6KA5TRIM66KDM5BH3-5H3C13E2F6
PROTEIN STRUCTURE
Preparing viewer…
PDB5T1I · 1.60 Å · X-ray
View on RCSB ↗
Constraintⓘ
LOEUFⓘ
0.56Moderately Constrained
pLIⓘ
0.92Intolerant
Observed/Expected LoF0.22 [0.10–0.56]
RankingsWhere CBX3 stands among ~20K protein-coding genes
  • #963of 20,598
    Most Researched336 · top 5%
  • #3,691of 17,882
    Most Constrained (LOEUF)0.56 · top quartile
Genes detectedCBX3
Sources retrieved27 papers
Response time—
📄 Sources
27▼
1
Lactate reprograms glioblastoma immunity through CBX3-regulated histone lactylation.
PMID: 39545414
J Clin Invest · 2024
1.00
2
CBX3 promotes multidrug resistance by suppressing ferroptosis in colorectal carcinoma via the CUL3/NRF2/GPX2 axis.
PMID: 40089640
Oncogene · 2025
0.90
3
Clinicopathological and Prognostic Significance of CBX3 Expression in Human Cancer: a Systematic Review and Meta-analysis.
PMID: 33273987
Dis Markers · 2020
0.80
4
Integrated Lactylome Characterization Reveals the Molecular Dynamics of Protein Regulation in Gastrointestinal Cancers.
PMID: 39018247
Adv Sci (Weinh) · 2024
0.70
5
The Prevalence and Characteristics of IgA Antibodies to β2-Spectrin and CBX3 in Immunoglobulin A Nephropathy.
PMID: 40485707
Kidney Int Rep · 2025
0.68