BMI1

gene
On this page

Also known as RNF51

Summary

BMI1 (BMI1 proto-oncogene, polycomb ring finger, HGNC:1066) is a protein-coding gene on chromosome 10p12.2, encoding Polycomb complex protein BMI-1 (P35226). Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development.

This gene encodes a ring finger protein that is major component of the polycomb group complex 1 (PRC1). This complex functions through chromatin remodeling as an essential epigenetic repressor of multiple regulatory genes involved in embryonic development and self-renewal in somatic stem cells. This protein also plays a central role in DNA damage repair. This gene is an oncogene and aberrant expression is associated with numerous cancers and is associated with resistance to certain chemotherapies. A pseudogene of this gene is found on chromosome X. Read-through transcription also exists between this gene and the upstream COMM domain containing 3 (COMMD3) gene.

Source: NCBI Gene 648 — RefSeq curated summary.

At a glance

  • GWAS associations: 1
  • Clinical variants (ClinVar): 9 total
  • Druggable target: yes
  • MANE Select transcript: NM_005180

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:1066
Approved symbolBMI1
NameBMI1 proto-oncogene, polycomb ring finger
Location10p12.2
Locus typegene with protein product
StatusApproved
AliasesRNF51
Ensembl geneENSG00000168283
Ensembl biotypeprotein_coding
OMIM164831
Entrez648

Gene structure

Transcript identifiers

Ensembl transcripts: 22 — 16 protein_coding, 6 retained_intron

ENST00000376663, ENST00000416820, ENST00000442508, ENST00000443519, ENST00000456675, ENST00000490311, ENST00000496174, ENST00000602358, ENST00000602523, ENST00000602524, ENST00000895844, ENST00000895845, ENST00000895846, ENST00000895847, ENST00000895848, ENST00000895849, ENST00000922171, ENST00000922172, ENST00000922173, ENST00000963380, ENST00000963381, ENST00000963382

RefSeq mRNA: 5 — MANE Select: NM_005180 NM_001428309, NM_001428310, NM_001428311, NM_001428312, NM_005180

CCDS: CCDS7138

Canonical transcript exons

ENST00000376663 — 10 exons

ExonStartEnd
ENSE000012518632232109922321696
ENSE000019161232232921322331484
ENSE000034593132232643122326561
ENSE000035046442232860022328698
ENSE000035151842232689022326986
ENSE000035182932232759522327650
ENSE000035543932232813422328179
ENSE000035966862232904822329128
ENSE000036442772232774222327792
ENSE000036862232232795022328058

Expression profiles

Bgee: expression breadth ubiquitous, 293 present calls, max score 98.62.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 19.9562 / max 390.4914, expressed in 1791 samples.

FANTOM5 promoters (13 alternative TSS)

Promoter IDTPM avgSamples expressed
1042377.57901680
1042393.69091238
1042483.26671343
1042461.2263737
1042411.0123679
1042440.8798426
1042400.8788481
1042420.4307197
1042430.2997125
1042490.241784

Top tissues by expression

295 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
germinal epithelium of ovaryUBERON:000130498.62gold quality
choroid plexus epitheliumUBERON:000391198.32gold quality
endothelial cellCL:000011597.95gold quality
cranial nerve IIUBERON:000094197.29gold quality
Brodmann (1909) area 23UBERON:001355497.26gold quality
visceral pleuraUBERON:000240197.25gold quality
corpus callosumUBERON:000233697.08gold quality
pigmented layer of retinaUBERON:000178296.93gold quality
tibiaUBERON:000097996.80gold quality
parietal pleuraUBERON:000240096.79gold quality
superficial temporal arteryUBERON:000161496.66gold quality
pleuraUBERON:000097796.51gold quality
epithelium of nasopharynxUBERON:000195196.47gold quality
corpus epididymisUBERON:000435996.42gold quality
cauda epididymisUBERON:000436096.40gold quality
biceps brachiiUBERON:000150796.38gold quality
cortical plateUBERON:000534396.32gold quality
calcaneal tendonUBERON:000370196.29gold quality
caput epididymisUBERON:000435896.20gold quality
islet of LangerhansUBERON:000000696.18gold quality
primordial germ cell in gonadCL:0000670 ∩ UBERON:000099196.10gold quality
skeletal muscle tissue of biceps brachiiUBERON:000450296.07gold quality
mucosa of paranasal sinusUBERON:000503095.97gold quality
blood vessel layerUBERON:000479795.95gold quality
skeletal muscle tissue of rectus abdominisUBERON:000451195.85gold quality
bronchial epithelial cellCL:000232895.76gold quality
endometriumUBERON:000129595.70gold quality
palpebral conjunctivaUBERON:000181295.70gold quality
endometrium epitheliumUBERON:000481195.69gold quality
ganglionic eminenceUBERON:000402395.56gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 1.

ExperimentMarker?Max mean expression
E-ANND-3yes6.98
E-MTAB-7303no285.37

Regulation

Is transcription factor: yes

Downstream targets (CollecTRI)

4 targets.

TargetRegulation
BMI1Activation
CDKN2AUnknown
PTENRepression
TERTRepression

Upstream regulators (CollecTRI, top): BCL6, BCOR, BMI1, CEBPA, E2F1, EGR1, ESR1, EZH2, FOXC1, FOXM1, GLI1, ID1, KDM5B, KMT2A, MBD2, MYC, MYCN, NANOG, SALL4, SOX9, SP1, SUZ12, TWIST1, YBX1, ZEB1, ZNF277

miRNA regulators (miRDB)

129 targeting BMI1, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-3646100.0073.565283
HSA-MIR-340-5P100.0072.504437
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-428299.9975.366408
HSA-MIR-196A-1-3P99.9972.152772
HSA-MIR-548N99.9871.944170
HSA-MIR-27A-3P99.9872.132955
HSA-MIR-27B-3P99.9872.132955
HSA-MIR-998599.9872.112939
HSA-MIR-568899.9673.234504
HSA-MIR-551B-5P99.9671.283493
HSA-MIR-495-3P99.9672.814197
HSA-MIR-55999.9572.283609
HSA-LET-7C-3P99.9573.422862
HSA-MIR-548AB99.9571.313488
HSA-MIR-128-3P99.9571.172484
HSA-MIR-216A-3P99.9571.192505
HSA-MIR-391099.9571.132227
HSA-MIR-548A-5P99.9471.273482
HSA-MIR-548AD-5P99.9471.233502
HSA-MIR-548AE-5P99.9471.233502
HSA-MIR-548AK99.9471.243488
HSA-MIR-548AM-5P99.9471.243488
HSA-MIR-548AP-5P99.9471.143489
HSA-MIR-548AQ-5P99.9471.343426
HSA-MIR-548AR-5P99.9471.283515
HSA-MIR-548AS-5P99.9471.223482
HSA-MIR-548AU-5P99.9471.243488
HSA-MIR-548AY-5P99.9471.233502
HSA-MIR-548B-5P99.9471.233502

Literature-anchored findings (GeneRIF, showing 40)

  • The Bmi-1 oncogene induces telomerase activity and immortalizes human mammary epithelial cells. (PMID:12183433)
  • Bmi-1 extends the replicative life span of human fibroblasts by suppressing the p16-dependent senescence pathway (PMID:12482990)
  • BMI-1 binds the MLL repression domain. Recruitment of BMI-1 to the MLL protein may be able to modulate its function. (PMID:12829790)
  • E2a-Pbx1 and Bmi-1 are likely to play a role in the pathogenesis of human lymphoid leukemias through downregulation of the INK4A-ARF gene (PMID:14536079)
  • modulation of Bmi-1 protein might be involved in human colorectal carcinogenesis by repressing the INK4a/ARF proteins (PMID:14732230)
  • BMI-1 is transiently localized with the centromeric region in interphase. (PMID:15009096)
  • BMI1 overexpression is an alternative or additive mechanism in the pathogenesis of medulloblastomas (PMID:15029199)
  • Activation or overexpression of MAPKAP kinase 3pK resulted in phosphorylation of Bmi1 and other PcG members and their dissociation from chromatin (PMID:15563468)
  • Altered expression is associated with therapy failure and death in patients with multiple types of cancer. (PMID:15931389)
  • a subgroup of M0 patients has a high expression level of polycomb group gene BMI-1, which may contribute to leukemogenesis (PMID:16105758)
  • CALM-AF10+ T-ALL associatd with elevated expression of subset of HOXA genes and some of there transcriptional and functional regulators, as well as specific overexpression of oncogene BMI1 (PMID:16107895)
  • EZH2 is essential for BMI1 recruitment to the polycomb bodies. (PMID:16314526)
  • Critical for the short-term survival of cancer cells, and inhibition has minimal effect on the survival of normal cells. (PMID:16501599)
  • p16(INK4a) expression was regulated by the Polycomb group repressor Bmi-1, which is shown as a direct transcriptional target of c-Myc. (PMID:16537449)
  • Bmi-1-Ring1B complex stabilizes the interaction of the ubiquitin ligase complex. (PMID:16714294)
  • Bmi1 is required for H2A ubiquitylation; H2A ubiquitylation regulates Bmi1-mediated gene expression (PMID:16751658)
  • BMI-1 is expressed in gastrointestinal stem cells and may have a role protein in cellular differentiation and stem cell maintenance (PMID:16874656)
  • bmi1 expression caused by oxidative stress may be involved in the pathogenesis of cellular senescence of biliary epithelial cells in primary biliary cirrhosis. (PMID:16936260)
  • Advanced cell- & animal imaging, expression profiling, stable siRNA-gene targeting, and TMAs of experimental and clinical samples indicate that activation of the BMI1 oncogene-associated PcG pathway plays an essential role in metastatic prostate cancer. (PMID:16963837)
  • Bmi-1 regulates the differentiation and clonogenic self-renewal of I-type neuroblastoma cells (PMID:16982619)
  • PcG protein BMI1 is associated with adverse pathological features and clinical PSA recurrence of prostate cancer. (PMID:17134822)
  • The oncogenic role of Bmi-1 in human primary breast carcinomas is not determined by its capacity to inhibit INK4a/ARF proteins(p16INK4a, p14ARF, or h-TERT) or to induce telomerase activity. (PMID:17145810)
  • Bmi1 overexpression was correlated with the malignant grades of human digestive precancerous tissues, which suggests that advanced Bmi1 dysregulation might predict malignant progression. (PMID:17145814)
  • ERK5 probably mediates HOXB9 expression by repressing BMI1 in Hodgkin lymphoma cell lines (PMID:17148583)
  • Bmi-1 and LMP1 down-regulate the ataxia telangiectasia-mutated (ATM) tumor suppressor and conclude that Bmi-1 contributes to LMP1-induced oncogenesis in Hodgkin lymphoma (PMID:17148591)
  • Our data suggest that Mel-18 regulates Bmi-1 expression during senescence via down-regulation of c-Myc. (PMID:17151361)
  • Our results provide new information on the roles of Bmi-1 and HPV-16 E6 in the multi-step process of oral epithelial carcinogenesis. (PMID:17161394)
  • The Bmi-1 may act through p16(INK4A)-independent pathways to regulate cellular proliferation during oral cancer progression. (PMID:17179983)
  • many human cell types undergo senescence by activation of the p16(INK4a)/Rb pathway, and that introduction of Bmi-1 can inhibit p16(INK4a) expression and extend the life span of human epithelial cells (PMID:17233832)
  • The intensive expression of Bmi-1 in breast cancer is related to tumor progression. (PMID:17298744)
  • Study shows that the ability of the oncogene BMI1 to repress the INK4A-ARF locus requires its direct association and is dependent on the continued presence of the EZH2-containing Polycomb-Repressive Complex 2 complex. (PMID:17344414)
  • In a cohort of 64 CML patients, the level of BMI1 at diagnosis correlated with time to transformation to blast crisis, and the combination of low BMI1 and high proteinase-3 expression was associated with an improved overall survival (PMID:17360938)
  • These results suggest that Bmi-1 and Mel-18 may have overlapping functions in cancer cell growth. (PMID:17452456)
  • Bmi-1 seems to play a secondary role in chronic myeloid leukemia transformation (PMID:17454639)
  • Mel-18 and Bmi-1 may regulate the Akt pathway in breast cancer cells, and that Mel-18 functions as a tumor suppressor by repressing the expression of Bmi-1 and consequently down-regulating Akt activity. (PMID:17545584)
  • BMI1 is a target gene for SALL4 in leukemic cells. (PMID:17557835)
  • BMI-1 mediated repression of p16(ink4a) may contribute to an increased aggressive behavior of stem cell-like melanoma cells. (PMID:17597110)
  • Bmi-1 may promote maintenance of suprabasal keratinocyte survival to prevent premature death during differentiation. (PMID:17625597)
  • Bmi-1 mRNA expression is correlated to differentiation and metastasis of gastric carcinoma and may facilitate its prognostic evaluation. (PMID:17666329)
  • Elevated Bmi-1 is associated with breast cancer (PMID:17711569)

Cross-species orthologs

6 orthologs

OrganismSymbolGene ID
danio_reriobmi1aENSDARG00000006010
danio_reriobmi1bENSDARG00000013076
mus_musculusBmi1ENSMUSG00000026739
rattus_norvegicusBmi1ENSRNOG00000016585
drosophila_melanogasterPscFBGN0005624
drosophila_melanogasterSu(z)2FBGN0265623

Paralogs (7): PCGF1 (ENSG00000115289), RNF2 (ENSG00000121481), PCGF6 (ENSG00000156374), PCGF5 (ENSG00000180628), PCGF3 (ENSG00000185619), RING1 (ENSG00000204227), PCGF2 (ENSG00000277258)

Protein

Protein identifiers

Polycomb complex protein BMI-1P35226 (reviewed: P35226)

Alternative names: Polycomb group RING finger protein 4, RING finger protein 51

All UniProt accessions (4): P35226, Q5T8Z2, Q5T8Z4, Q5T8Z6

UniProt curated annotations — full annotation on UniProt →

Function. Component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones; it mediates monoubiquitination of histone H2A ‘Lys-119’, rendering chromatin heritably changed in its expressibility. The complex composed of RNF2, UB2D3 and BMI1 binds nucleosomes, and has activity only with nucleosomal histone H2A. In the PRC1-like complex, regulates the E3 ubiquitin-protein ligase activity of RNF2/RING2.

Subunit / interactions. Component of a PRC1-like complex. Identified in a PRC1-like HPRC-H complex with CBX2, CBX4, CBX8, PHC1, PHC2, PHC3 RING1 and RNF2. Interacts with RNF2/RING2. Interacts with RING1. Part of a complex that contains RNF2, UB2D3 and BMI1, where RNF2 and BMI1 form a tight heterodimer, and UB2D3 interacts only with RNF2. The complex composed of RNF2, UB2D3 and BMI1 binds nucleosomes, and has activity only with nucleosomal histone H2A. Interacts with CBX7 and CBX8. Interacts with SPOP. Part of a complex consisting of BMI1, CUL3 and SPOP. Interacts with E4F1. Interacts with PHC2. Interacts with zinc finger protein ZNF277. May be part of a complex including at least ZNF277, BMI1 and RNF2/RING2.

Subcellular location. Nucleus. Cytoplasm.

Post-translational modifications. Monoubiquitinated. May be polyubiquitinated; which does not lead to proteasomal degradation.

Induction. Down-regulated by oxidative stress.

Miscellaneous. The hPRC-H complex purification reported by PubMed:12167701 probably presents a mixture of different PRC1-like complexes.

RefSeq proteins (5): NP_001415238, NP_001415239, NP_001415240, NP_001415241, NP_005171* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR001841Znf_RINGDomain
IPR013083Znf_RING/FYVE/PHDHomologous_superfamily
IPR017907Znf_RING_CSConserved_site
IPR032443RAWULDomain

Pfam: PF13923, PF16207

UniProt features (43 total): strand 10, helix 10, mutagenesis site 7, turn 4, region of interest 3, compositionally biased region 3, sequence conflict 2, chain 1, zinc finger region 1, short sequence motif 1, sequence variant 1

Structure

Experimental structures (PDB)

13 structures.

PDBMethodResolution (Å)
6WI7X-RAY DIFFRACTION1.7
2H0DX-RAY DIFFRACTION2.5
5FR6X-RAY DIFFRACTION2.51
3RPGX-RAY DIFFRACTION2.65
9DBYELECTRON MICROSCOPY2.8
8PP7ELECTRON MICROSCOPY2.91
9DGGELECTRON MICROSCOPY2.98
8GRMELECTRON MICROSCOPY3.05
6WI8X-RAY DIFFRACTION3.09
9DDEELECTRON MICROSCOPY3.2
4R8PX-RAY DIFFRACTION3.28
2NA1SOLUTION NMR
7ND1SOLUTION NMR

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-P35226-F178.090.55

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Mutagenesis-validated functional residues (7):

PositionPhenotype
62strongly decreases histone h2a ubiquitination; when associated with a-64.
64mildly decreases histone h2a ubiquitination. strongly decreases histone h2a ubiquitination; when associated with a-62.
73increases stimulation of rnf2 ubiquitin ligase activity; when associated with e-77.
77increases stimulation of rnf2 ubiquitin ligase activity; when associated with n-73.
165decreases affinity for phc2. abolishes interaction with phc2; when associated with e-174.
170strongly decreases affinity for phc2.
174strongly decreases affinity for phc2. abolishes interaction with phc2; when associated with e-165.

Function

Pathways and Gene Ontology

Reactome pathways

25 pathways

IDPathway
R-HSA-2559580Oxidative Stress Induced Senescence
R-HSA-3108214SUMOylation of DNA damage response and repair proteins
R-HSA-3899300SUMOylation of transcription cofactors
R-HSA-4551638SUMOylation of chromatin organization proteins
R-HSA-4570464SUMOylation of RNA binding proteins
R-HSA-4655427SUMOylation of DNA methylation proteins
R-HSA-8939243RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known
R-HSA-8943724Regulation of PTEN gene transcription
R-HSA-8953750Transcriptional Regulation by E2F6
R-HSA-9976102Differentiation of naive CD4+ T cells to T helper 2 cells (Th2 cells)
R-HSA-1257604PIP3 activates AKT signaling
R-HSA-162582Signal Transduction
R-HSA-212436Generic Transcription Pathway
R-HSA-2262752Cellular responses to stress
R-HSA-2559583Cellular Senescence
R-HSA-2990846SUMOylation
R-HSA-3108232SUMO E3 ligases SUMOylate target proteins
R-HSA-392499Metabolism of proteins
R-HSA-597592Post-translational protein modification
R-HSA-6807070PTEN Regulation
R-HSA-73857RNA Polymerase II Transcription
R-HSA-74160Gene expression (Transcription)
R-HSA-8878171Transcriptional regulation by RUNX1
R-HSA-8953897Cellular responses to stimuli
R-HSA-9006925Intracellular signaling by second messengers

MSigDB gene sets: 437 (showing top): GSE45365_NK_CELL_VS_BCELL_DN, GOBP_REGULATION_OF_CELL_ACTIVATION, RNGTGGGC_UNKNOWN, FXR_IR1_Q6, GOBP_REGULATION_OF_LEUKOCYTE_PROLIFERATION, GOBP_EMBRYO_DEVELOPMENT_ENDING_IN_BIRTH_OR_EGG_HATCHING, GOBP_EPITHELIUM_DEVELOPMENT, ZHAN_LATE_DIFFERENTIATION_GENES_UP, GOBP_SKELETAL_SYSTEM_DEVELOPMENT, GGGNRMNNYCAT_UNKNOWN, GOBP_RESPONSE_TO_PEPTIDE, GOBP_CELLULAR_RESPONSE_TO_LIPID, GOBP_B_CELL_ACTIVATION, GOBP_RESPONSE_TO_CORTICOSTEROID, GOBP_EMBRYONIC_SKELETAL_SYSTEM_DEVELOPMENT

GO Biological Process (26): negative regulation of transcription by RNA polymerase II (GO:0000122), in utero embryonic development (GO:0001701), chromatin remodeling (GO:0006338), DNA methylation-dependent constitutive heterochromatin formation (GO:0006346), humoral immune response (GO:0006959), segment specification (GO:0007379), brain development (GO:0007420), regulation of gene expression (GO:0010468), rostrocaudal neural tube patterning (GO:0021903), hemopoiesis (GO:0030097), positive regulation of B cell proliferation (GO:0030890), positive regulation of immature T cell proliferation in thymus (GO:0033092), negative regulation of gene expression, epigenetic (GO:0045814), somatic stem cell division (GO:0048103), positive regulation of fibroblast proliferation (GO:0048146), embryonic skeletal system morphogenesis (GO:0048704), positive regulation of ubiquitin-protein transferase activity (GO:0051443), cellular response to interleukin-1 (GO:0071347), cellular response to dexamethasone stimulus (GO:0071549), regulation of kidney development (GO:0090183), apoptotic signaling pathway (GO:0097190), regulation of adaxial/abaxial pattern formation (GO:2000011), negative regulation of apoptotic signaling pathway (GO:2001234), skeletal system development (GO:0001501), chromatin organization (GO:0006325), embryonic skeletal system development (GO:0048706)

GO Molecular Function (7): zinc ion binding (GO:0008270), RING-like zinc finger domain binding (GO:0071535), ubiquitin-protein transferase activator activity (GO:0097027), promoter-specific chromatin binding (GO:1990841), chromatin binding (GO:0003682), protein binding (GO:0005515), metal ion binding (GO:0046872)

GO Cellular Component (9): ubiquitin ligase complex (GO:0000151), heterochromatin (GO:0000792), nucleus (GO:0005634), nucleoplasm (GO:0005654), cytosol (GO:0005829), nuclear body (GO:0016604), PcG protein complex (GO:0031519), PRC1 complex (GO:0035102), cytoplasm (GO:0005737)

Reactome top-level categories

Rollup of top-14 pathways:

CategoryPathways
SUMO E3 ligases SUMOylate target proteins5
Cellular Senescence1
Transcriptional regulation by RUNX11
PTEN Regulation1
Generic Transcription Pathway1
Differentiation of T cells1
Intracellular signaling by second messengers1
RNA Polymerase II Transcription1
Cellular responses to stimuli1
Cellular responses to stress1
Post-translational protein modification1
SUMOylation1
Metabolism of proteins1
PIP3 activates AKT signaling1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
cellular anatomical structure3
ubiquitin-protein transferase activity2
binding2
regulation of transcription by RNA polymerase II1
transcription by RNA polymerase II1
negative regulation of DNA-templated transcription1
chordate embryonic development1
chromatin organization1
constitutive heterochromatin formation1
immune response1
pattern specification process1
segmentation1
central nervous system development1
animal organ development1
head development1
gene expression1
regulation of macromolecule biosynthetic process1
anterior/posterior pattern specification1
neural tube patterning1
cell development1
regulation of B cell proliferation1
B cell proliferation1
positive regulation of lymphocyte proliferation1
positive regulation of B cell activation1
immature T cell proliferation in thymus1
regulation of immature T cell proliferation in thymus1
positive regulation of immature T cell proliferation1
negative regulation of gene expression1
epigenetic regulation of gene expression1
stem cell division1
positive regulation of cell population proliferation1
fibroblast proliferation1
regulation of fibroblast proliferation1
embryonic organ morphogenesis1
skeletal system morphogenesis1
embryonic skeletal system development1
positive regulation of protein ubiquitination1
positive regulation of catalytic activity1
regulation of ubiquitin-protein transferase activity1
response to interleukin-11

Protein interactions and networks

STRING

4511 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
BMI1RNF2Q99496999
BMI1RING1Q06587999
BMI1PHC1P78364997
BMI1CBX2Q14781995
BMI1CBX7O95931992
BMI1CBX4O00257991
BMI1CBX1P23197991
BMI1PCGF2P35227987
BMI1EZH2Q15910985
BMI1CBX8Q9HC52977
BMI1SLC25A3Q00325970
BMI1SUZ12Q15022970
BMI1PHC2Q8IXK0964
BMI1TTKP33981964
BMI1RYBPQ8N488964

IntAct

205 interactions, top by confidence:

ABTypeScore
BMI1CBX8psi-mi:“MI:0915”(physical association)0.970
CBX8BMI1psi-mi:“MI:2364”(proximity)0.970
CBX8BMI1psi-mi:“MI:0407”(direct interaction)0.970
CBX8BMI1psi-mi:“MI:0914”(association)0.970
CBX8BMI1psi-mi:“MI:0915”(physical association)0.970
BMI1CBX8psi-mi:“MI:0403”(colocalization)0.970
RING1BMI1psi-mi:“MI:0915”(physical association)0.960
BMI1RING1psi-mi:“MI:0915”(physical association)0.960
RNF2BMI1psi-mi:“MI:0915”(physical association)0.960
BMI1RNF2psi-mi:“MI:0915”(physical association)0.960
RING1BMI1psi-mi:“MI:0914”(association)0.960
BMI1RING1psi-mi:“MI:0914”(association)0.960

BioGRID (1045): RNF2 (Co-purification), RNF2 (Reconstituted Complex), PHC2 (Two-hybrid), RING1 (Two-hybrid), NDEL1 (Two-hybrid), BMI1 (Co-crystal Structure), BMI1 (Protein-peptide), BMI1 (Affinity Capture-MS), BMI1 (Affinity Capture-MS), YLPM1 (Affinity Capture-MS), ILF3 (Affinity Capture-MS), TAF15 (Affinity Capture-MS), TDRD1 (Affinity Capture-MS), UPF1 (Affinity Capture-MS), ADAR (Affinity Capture-MS)

ESM2 similar proteins: A0JN86, A2AHJ4, A2APV2, A2AQW0, A9JRL3, B3DK16, O08874, O35099, P0CF52, P19447, P23798, P25916, P32866, P35226, P35227, P49135, Q07139, Q1JPS1, Q1RMT1, Q21029, Q28H21, Q2YDF9, Q32KX7, Q3UK78, Q4QR06, Q5R8L2, Q5RA62, Q5SDR3, Q5ZKK7, Q640D5, Q6DD21, Q6DLV9, Q6GN16, Q6RI45, Q6ZN16, Q7T3E6, Q7Z569, Q7ZYZ7, Q86SE9, Q8BPM2

Diamond homologs: A0JN86, B3DK16, P23798, P25916, P35226, P35227, Q07G17, Q0WX00, Q14527, Q1JPS1, Q28H21, Q2KJ29, Q2YDF9, Q32KX7, Q3KNV8, Q3UK78, Q4QR06, Q5R8L2, Q5SDR3, Q5XI70, Q640D5, Q6CJM4, Q6DLV9, Q7T3E6, Q7ZYZ7, Q86SE9, Q8BTQ0, Q8JIR0, Q8R023, Q91648, Q94AY3, Q99NA9, Q9BSM1, Q9BYE7, Q9FKW0, Q9LS86, Q9M9Y4, Q9TST0, O60106, Q19336

SIGNOR signaling

19 interactions.

AEffectBMechanism
BMI1“down-regulates quantity by repression”CDKN2A“transcriptional regulation”
BMI1“down-regulates quantity by repression”PTEN“transcriptional regulation”
BMI1“up-regulates quantity by expression”BMI1“transcriptional regulation”
AKT“up-regulates activity”BMI1phosphorylation
NDNdown-regulatesBMI1
BMI1down-regulatesNDN
UBAP2L“up-regulates activity”BMI1binding
BMI1“form complex”“Polycomb repressive complex 1”binding
Ub:E2“up-regulates activity”BMI1ubiquitination
SPOP“up-regulates activity”BMI1binding
“Cullin 3-RBX1-Skp1”“up-regulates activity”BMI1ubiquitination
CSNK2A1“down-regulates quantity by destabilization”BMI1phosphorylation
BMI1“up-regulates activity”H2AXubiquitination
AKT2“up-regulates activity”BMI1phosphorylation
AKT3“up-regulates activity”BMI1phosphorylation
Membrane_blebbing“up-regulates activity”BMI1phosphorylation
AKT1“up-regulates activity”BMI1phosphorylation

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 101 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

PathwayPartnersFoldFDR
SUMOylation of DNA methylation proteins11113.7×3e-19
RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known1569.3×3e-22
Transcriptional Regulation by E2F61149.5×2e-14
SUMOylation of transcription cofactors1141.1×1e-13
SUMOylation of RNA binding proteins1140.3×1e-13
Regulation of PTEN gene transcription1438.4×6e-17
SUMOylation of chromatin organization proteins1229.3×3e-13
SUMOylation of DNA damage response and repair proteins1124.8×3e-11

GO biological processes:

GO termPartnersFoldFDR
negative regulation of proteasomal ubiquitin-dependent protein catabolic process627.7×2e-05
heterochromatin formation514.7×2e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

9 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance7
Likely benign1
Benign1

Top pathogenic / likely-pathogenic (0)

SpliceAI

1162 predictions. Top by Δscore:

VariantEffectΔscore
10:22326426:TGCA:Tacceptor_loss1.0000
10:22326427:GCAG:Gacceptor_loss1.0000
10:22326428:CA:Cacceptor_loss1.0000
10:22326429:A:ACacceptor_loss1.0000
10:22326429:A:AGacceptor_gain1.0000
10:22326429:AG:Aacceptor_gain1.0000
10:22326430:G:GAacceptor_gain1.0000
10:22326430:GG:Gacceptor_gain1.0000
10:22326430:GGA:Gacceptor_gain1.0000
10:22326430:GGAT:Gacceptor_gain1.0000
10:22326430:GGATT:Gacceptor_gain1.0000
10:22326557:TTCCT:Tdonor_gain1.0000
10:22326558:TCCT:Tdonor_gain1.0000
10:22326558:TCCTG:Tdonor_loss1.0000
10:22326559:CCT:Cdonor_gain1.0000
10:22326559:CCTGT:Cdonor_loss1.0000
10:22326560:CT:Cdonor_gain1.0000
10:22326560:CTGT:Cdonor_loss1.0000
10:22326561:TG:Tdonor_loss1.0000
10:22326562:G:GGdonor_gain1.0000
10:22326562:GTAA:Gdonor_loss1.0000
10:22326563:T:Adonor_loss1.0000
10:22326563:T:Gdonor_loss1.0000
10:22326564:AA:Adonor_loss1.0000
10:22326888:A:AGacceptor_gain1.0000
10:22326889:G:GAacceptor_gain1.0000
10:22326889:GT:Gacceptor_gain1.0000
10:22326889:GTCT:Gacceptor_gain1.0000
10:22327651:G:GGdonor_gain1.0000
10:22327738:TCAGA:Tacceptor_loss1.0000

AlphaMissense

2165 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
10:22326484:T:AL12Q1.000
10:22326484:T:CL12P1.000
10:22326488:T:AN13K1.000
10:22326488:T:GN13K1.000
10:22326496:T:AL16Q1.000
10:22326496:T:CL16P1.000
10:22326501:T:AC18S1.000
10:22326501:T:CC18R1.000
10:22326502:G:AC18Y1.000
10:22326502:G:CC18S1.000
10:22326502:G:TC18F1.000
10:22326503:T:GC18W1.000
10:22326510:T:AC21S1.000
10:22326510:T:CC21R1.000
10:22326511:G:AC21Y1.000
10:22326511:G:CC21S1.000
10:22326511:G:TC21F1.000
10:22326512:T:GC21W1.000
10:22326516:G:AG23R1.000
10:22326516:G:CG23R1.000
10:22326516:G:TG23W1.000
10:22326517:G:AG23E1.000
10:22326517:G:TG23V1.000
10:22326519:T:CY24H1.000
10:22326523:T:CF25S1.000
10:22326526:T:AI26N1.000
10:22326529:A:TD27V1.000
10:22326532:C:AA28D1.000
10:22326532:C:TA28V1.000
10:22326538:C:TT30I1.000

dbSNP variants (sampled 300 via entrez): RS1000104172 (10:22331976 A>C,T), RS1000814650 (10:22319566 T>A,C), RS1001065063 (10:22326251 C>T), RS1001221720 (10:22323605 T>G), RS1001531663 (10:22321631 A>C,G), RS1001754277 (10:22330801 A>G), RS1002227937 (10:22322303 G>A,C,T), RS1002408957 (10:22321976 G>A), RS1002484452 (10:22321485 C>G,T), RS1002748376 (10:22325623 T>C,G), RS1002895331 (10:22325120 C>T), RS1003022707 (10:22319636 A>G), RS1003075558 (10:22324363 A>G), RS1003409145 (10:22322993 C>T), RS1003482800 (10:22331834 T>G)

Disease associations

OMIM: gene MIM:164831 | disease phenotypes:

GenCC curated gene-disease

Mondo (1): breast ductal adenocarcinoma (MONDO:0005590)

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

1 associations (top):

StudyTraitp-value
GCST004093_34Prostate-specific antigen levels1.000000e-14

MeSH disease descriptors (1)

DescriptorNameTree numbers
D018270Carcinoma, Ductal, BreastC04.557.470.200.025.232.500; C04.557.470.615.132.500; C04.588.180.390; C17.800.090.500.390

Drugs & pharmacology

Drug and pharmacology data

Is drug target: yes

ChEMBL targets (3): CHEMBL4295749 (SINGLE PROTEIN), CHEMBL6066042 (PROTEIN-PROTEIN INTERACTION), CHEMBL6193762 (PROTEIN-PROTEIN INTERACTION)

PharmGKB: 1 entry (VIP=true, CPIC=false)

ChEMBL bioactivities

25 potent at pChembl≥5 of 25 total, top 25 by pChembl (potency: 10 = 0.1 nM, 6 = 1 µM).

pChemblTypeValueUnitMolecule
9.00IC501nMCHEMBL5270667
9.00IC501nMCHEMBL5275887
9.00IC501nMCHEMBL5272249
9.00IC501nMCHEMBL5271126
9.00IC501nMCHEMBL5269901
9.00IC501nMCHEMBL5282393
9.00IC501nMCHEMBL5281109
9.00IC501nMCHEMBL5288239
9.00IC501nMCHEMBL5287305
9.00IC501nMCHEMBL5270834
9.00IC501nMCHEMBL5274905
9.00IC501nMCHEMBL5285217
9.00IC501nMCHEMBL5278557
9.00IC501nMCHEMBL5282609
9.00IC501nMCHEMBL5289952
9.00IC501nMCHEMBL5268696
9.00IC501nMCHEMBL5273906
9.00IC501nMCHEMBL5280041
9.00IC501nMCHEMBL5276953
9.00IC501nMCHEMBL5266175
9.00IC501nMCHEMBL5270622
9.00IC501nMCHEMBL5272817
9.00IC501nMCHEMBL5272260
9.00IC501nMCHEMBL5282796
9.00IC501nMCHEMBL5278972

PubChem BioAssay actives

50 with measured affinity, of 81 total; 25 most potent distinct compounds. Largely complementary to BindingDB; screening values are coarse (µM, 4 dp), so sub-nM hits tie at the floor.

CompoundAssayTypeValueUnit
5-(2-methylbenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
3-(2-ethylbenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-5-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
N-[4-(difluoromethoxy)phenyl]-5-(6-fluoro-2-methylbenzimidazol-1-yl)-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
3-(2-cyclopropylbenzimidazol-1-yl)-N-[4-(difluoromethoxy)phenyl]-1,2,4-triazin-5-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
5-(2-ethylbenzimidazol-1-yl)-N-(4-methoxyphenyl)-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
3-(2-cyclopropyl-6-fluorobenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-5-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
N-[4-(difluoromethoxy)phenyl]-3-(2-ethylbenzimidazol-1-yl)-1,2,4-triazin-5-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
5-(2-cyclopropylbenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
3-(2-ethyl-6-fluorobenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-5-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
5-(2-ethylbenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
5-(2-ethylbenzimidazol-1-yl)-N-(4-methylphenyl)-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
N-(4-methoxyphenyl)-5-(2-methylbenzimidazol-1-yl)-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
3-(2-cyclopropylbenzimidazol-1-yl)-N-(4-methoxyphenyl)-1,2,4-triazin-5-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
5-(2-methylbenzimidazol-1-yl)-N-(4-methylphenyl)-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
5-(6-fluoro-2-methylbenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
N-[4-(difluoromethoxy)phenyl]-5-(2-ethylbenzimidazol-1-yl)-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
3-(2-ethylbenzimidazol-1-yl)-N-(4-methoxyphenyl)-1,2,4-triazin-5-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
5-(2-cyclopropyl-6-fluorobenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
N-[4-(difluoromethoxy)phenyl]-5-(2-methylbenzimidazol-1-yl)-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
N-[4-(difluoromethoxy)phenyl]-5-(2-ethyl-6-fluorobenzimidazol-1-yl)-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
N-[4-(difluoromethoxy)phenyl]-3-(2-methylbenzimidazol-1-yl)-1,2,4-triazin-5-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
3-(2-cyclopropylbenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-5-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
3-(2-methylbenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-5-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
5-(2-ethyl-6-fluorobenzimidazol-1-yl)-N-[4-(trifluoromethyl)phenyl]-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM
5-(2-cyclopropylbenzimidazol-1-yl)-N-[4-(difluoromethoxy)phenyl]-1,2,4-triazin-3-amine1958785: Inhibition of BMI1 (unknown origin) by ELISA assayic500.0010uM

CTD chemical–gene interactions

59 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
Cisplatinincreases expression, decreases reaction, increases phosphorylation, increases abundance, decreases response to substance (+4 more)5
sodium arseniteincreases reaction, decreases reaction, increases expression, affects reaction, affects expression (+2 more)4
Smokedecreases reaction, increases expression, decreases expression3
bisphenol Aincreases expression, affects cotreatment, decreases expression2
trichostatin Aaffects cotreatment, increases expression, affects expression2
Acetaminophendecreases expression2
Silicon Dioxidedecreases expression, increases expression, decreases acetylation, decreases reaction, affects expression (+2 more)2
Tretinoinincreases expression2
Valproic Aciddecreases methylation, increases expression2
FR900359increases phosphorylation1
napabucasindecreases expression1
triphenyl phosphateaffects expression1
cobaltous chloridedecreases expression1
nickel sulfatedecreases expression1
S-(1,2-dichlorovinyl)cysteineaffects response to substance, increases expression1
diallyl trisulfideaffects expression1
3-deazaneplanocinincreases expression, decreases reaction1
casticindecreases expression, increases reaction, decreases reaction1
di-n-butylphosphoric acidaffects expression1
benzyloxycarbonylleucyl-leucyl-leucine aldehydeincreases expression1
abrineincreases expression1
imetelstatdecreases expression1
protoapigenonedecreases expression1
bisphenol Saffects cotreatment, decreases expression1
jinfukangdecreases expression, increases reaction1
ibrutinibdecreases expression1
(+)-JQ1 compounddecreases expression1
2-pyridine-3-yl-methylene-indan-1,3-dionedecreases expression1
Rosiglitazonedecreases expression1
Temozolomidedecreases expression1

ChEMBL screening assays

25 unique, capped per target: 25 binding

Representative assays (with source publication via chembl_document):

Assay IDTypeDescriptionSource paper
CHEMBL4270360BindingInhibition of Bmi1 in human HCT116 cells assessed as reduction in H2A-K119Ub level after 8 hrs by Western blot analysisSynthesis of Cyanoenone-Modified Diterpenoid Analogs as Novel Bmi-1-Mediated Antitumor Agents. — ACS Med Chem Lett

Cellosaurus cell lines

43 cell lines: 19 telomerase immortalized cell line, 14 finite cell line, 4 transformed cell line, 4 cancer cell line, 2 embryonic stem cell

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_3222UBE6T-15Telomerase immortalized cell lineFemale
CVCL_3223UBE6T-6Telomerase immortalized cell lineFemale
CVCL_3224UBE6T-7Telomerase immortalized cell lineFemale
CVCL_4W37HAdpc-25-Bmi-1-TERTTelomerase immortalized cell lineFemale
CVCL_4W38HAdpc-26-E6-Bmi-1-TERTTransformed cell lineFemale
CVCL_6F31HAdpc-24-Bmi-1Finite cell lineFemale
CVCL_6F33UBE6T-8Telomerase immortalized cell lineFemale
CVCL_6F37BCPb8Telomerase immortalized cell lineSex unspecified
CVCL_6F38UBT-10Telomerase immortalized cell lineFemale
CVCL_A0I7SEES3-1V human BMI1, clone1Embryonic stem cellMale

Clinical trials (associated diseases)

11 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT03414970PHASE3ACTIVE_NOT_RECRUITINGHypofractionated Radiation Therapy After Mastectomy in Preventing Recurrence in Patients With Stage IIa-IIIa Breast Cancer
NCT00461344PHASE2TERMINATEDDocetaxel + Doxorubicin as Neoadjuvant Chemotherapy in Patients With Breast Cancer
NCT07499999PHASE2NOT_YET_RECRUITINGRandomized Double-Blind Phase II Trial of Baby Exemestane Versus Baby Tamoxifen in Post-Menopausal Women at High Risk for Breast Cancer
NCT00637364PHASE1/PHASE2SUSPENDEDHigh Intensity Focused Ultrasound Tumor Treatment for Pancreatic Cancer Pain
NCT02779855PHASE1/PHASE2COMPLETEDTalimogene Laherparepvec in Combination With Neoadjuvant Chemotherapy in Triple Negative Breast Cancer
NCT01753908EARLY_PHASE1COMPLETEDBroccoli Sprout Extract in Treating Patients With Breast Cancer
NCT01796041EARLY_PHASE1COMPLETEDIntraoperative Imaging of Breast Cancer With Indocyanine Green
NCT01208974Not specifiedACTIVE_NOT_RECRUITINGNipple-Areola Complex (NAC) Irradiation After Nipple-Sparing Mastectomy and Reconstruction
NCT01875198Not specifiedTERMINATEDOncologic Impact of Splenectomy-omitting Radical Pancreatectomy in Well-selected Left-sided Pancreatic Cancer
NCT03543397Not specifiedUNKNOWNMRI in Ductal Carcinoma in Situ (DCIS)
NCT03834532Not specifiedCOMPLETEDLiving Well After Breast Surgery
  • Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): breast ductal adenocarcinoma