Human Gene EZH2 (ENST00000320356.7_13) from GENCODE V47lift37
  Description: enhancer of zeste 2 polycomb repressive complex 2 subunit, transcript variant 1 (from RefSeq NM_004456.5)
Gencode Transcript: ENST00000320356.7_13
Gencode Gene: ENSG00000106462.12_16
Transcript (Including UTRs)
   Position: hg19 chr7:148,504,475-148,581,383 Size: 76,909 Total Exon Count: 20 Strand: -
Coding Region
   Position: hg19 chr7:148,504,738-148,544,390 Size: 39,653 Coding Exon Count: 19 

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Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesGeneReviewsModel Information
Methods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr7:148,504,475-148,581,383)mRNA (may differ from genome)Protein (751 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
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-  Comments and Description Text from UniProtKB
  ID: EZH2_HUMAN
DESCRIPTION: RecName: Full=Histone-lysine N-methyltransferase EZH2; EC=2.1.1.43; AltName: Full=ENX-1; AltName: Full=Enhancer of zeste homolog 2; AltName: Full=Lysine N-methyltransferase 6;
FUNCTION: Polycomb group (PcG) protein. Catalytic subunit of the PRC2/EED-EZH2 complex, which methylates 'Lys-9' (H3K9me) and 'Lys- 27' (H3K27me) of histone H3, leading to transcriptional repression of the affected target gene. Able to mono-, di- and trimethylate 'Lys-27' of histone H3 to form H3K27me1, H3K27me2 and H3K27me3, respectively. Compared to EZH2-containing complexes, it is more abundant in embryonic stem cells and plays a major role in forming H3K27me3, which is required for embryonic stem cell identity and proper differentiation. The PRC2/EED-EZH2 complex may also serve as a recruiting platform for DNA methyltransferases, thereby linking two epigenetic repression systems. Genes repressed by the PRC2/EED-EZH2 complex include HOXC8, HOXA9, MYT1, CDKN2A and retinoic acid target genes. EZH2 can also methylate non-histone proteins such as the transcription factor GATA4.
CATALYTIC ACTIVITY: S-adenosyl-L-methionine + L-lysine-[histone] = S-adenosyl-L-homocysteine + N(6)-methyl-L-lysine-[histone].
SUBUNIT: Binds ATRX via the SET domain (Probable). Component of the PRC2/EED-EZH2 complex, which includes EED, EZH2, SUZ12, RBBP4 and RBBP7 and possibly AEBP2. The minimum components required for methyltransferase activity of the PRC2/EED-EZH2 complex are EED, EZH2 and SUZ12. The PRC2 complex may also interact with DNMT1, DNMT3A, DNMT3B and PHF1 via the EZH2 subunit and with SIRT1 via the SUZ12 subunit. Interacts with HDAC1 and HDAC2. Interacts with PRAME.
INTERACTION: P26358:DNMT1; NbExp=8; IntAct=EBI-530054, EBI-719459; Q9Y6K1:DNMT3A; NbExp=4; IntAct=EBI-530054, EBI-923653; Q9UBC3:DNMT3B; NbExp=6; IntAct=EBI-530054, EBI-80125; Q15156:PML-RAR; NbExp=8; IntAct=EBI-530054, EBI-867256; P10276:RARA; NbExp=2; IntAct=EBI-530054, EBI-413374;
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: Expressed in many tissues. Overexpressed in numerous tumor types including carcinomas of the breast, colon, larynx, lymphoma and testis.
DEVELOPMENTAL STAGE: Expression decreases during senescence of embryonic fibroblasts (HEFs). Expression peaks at the G1/S phase boundary.
INDUCTION: Expression is induced by E2F1, E2F2 and E2F3. Expression is reduced in cells subject to numerous types of stress including UV-, IR- and bleomycin-induced DNA damage and by activation of p53/TP53.
PTM: Phosphorylated by AKT1. Phosphorylation by AKT1 reduces methyltransferase activity. Phosphorylation at Thr-345 by CDK1 and CDK2 promotes maintenance of H3K27me3 levels at EZH2-target loci, thus leading to epigenetic gene silencing.
PTM: Sumoylated.
DISEASE: Defects in EZH2 are the cause of Weaver syndrome type 2 (WVS2) [MIM:614421]. WVS2 is a syndrome of accelerated growth and osseous maturation, unusual craniofacial appearance, hoarse and low-pitched cry, and hypertonia with camptodactyly. Distinguishing features of Weaver syndrome include broad forehead and face, ocular hypertelorism, prominent wide philtrum, micrognathia, deep horizontal chin groove, and deep-set nails. In addition, carpal bone development is advanced over the rest of the hand.
SIMILARITY: Belongs to the histone-lysine methyltransferase family. EZ subfamily.
SIMILARITY: Contains 1 CXC domain.
SIMILARITY: Contains 1 SET domain.
CAUTION: Two variants of the PRC2 complex have been described, termed PRC3 and PRC4. Each of the three complexes may include a different complement of EED isoforms, although the precise sequences of the isoforms in each complex have not been determined. The PRC2 and PRC4 complexes may also methylate 'Lys- 26' of histone H1 in addition to 'Lys-27' of histone H3 (PubMed:15099518 and PubMed:15684044), although other studies have demonstrated no methylation of 'Lys-26' of histone H1 by PRC2 (PubMed:16431907).
SEQUENCE CAUTION: Sequence=AAS07448.1; Type=Erroneous gene model prediction;

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: EZH2
Diseases sorted by gene-association score: weaver syndrome* (1247), ezh2-related overgrowth* (100), cholangiolocellular carcinoma (23), diffuse large b-cell lymphoma (14), mantle cell lymphoma (13), chronic myelomonocytic leukemia (9), gallbladder adenocarcinoma (7), skeletal muscle regeneration (6), bladder cancer, somatic (6), breast adenoid cystic carcinoma (6), lymphoma (6), pancreatic mucinous cystadenoma (5), ovarian endodermal sinus tumor (5), skin sarcoma (4), ovarian primitive germ cell tumor (4), extraosseous ewing's sarcoma (4), prostate cancer (3), essential thrombocythemia (2), breast cancer (2), leukemia, acute myeloid (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 21.94 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 130.17 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -64.30135-0.476 Picture PostScript Text
3' UTR -47.90263-0.182 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR026489 - CXC_dom
IPR021654 - EZH2_WD-Binding
IPR001005 - SANT/Myb
IPR001214 - SET_dom

Pfam Domains:
PF00856 - SET domain
PF11616 - WD repeat binding protein EZH2
PF18118 - Polycomb repressive complex 2 tri-helical domain
PF18264 - CXC domain

SCOP Domains:
46689 - Homeodomain-like
82199 - SET domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2C6V - Model


ModBase Predicted Comparative 3D Structure on Q15910
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-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000979 RNA polymerase II core promoter sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001047 core promoter binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003723 RNA binding
GO:0005515 protein binding
GO:0008168 methyltransferase activity
GO:0016279 protein-lysine N-methyltransferase activity
GO:0016740 transferase activity
GO:0018024 histone-lysine N-methyltransferase activity
GO:0031490 chromatin DNA binding
GO:0042054 histone methyltransferase activity
GO:0043021 ribonucleoprotein complex binding
GO:0043565 sequence-specific DNA binding
GO:0044212 transcription regulatory region DNA binding
GO:0046976 histone methyltransferase activity (H3-K27 specific)
GO:0070878 primary miRNA binding
GO:1990841 promoter-specific chromatin binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001932 regulation of protein phosphorylation
GO:0006306 DNA methylation
GO:0006325 chromatin organization
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0010468 regulation of gene expression
GO:0010629 negative regulation of gene expression
GO:0010718 positive regulation of epithelial to mesenchymal transition
GO:0014013 regulation of gliogenesis
GO:0014834 skeletal muscle satellite cell maintenance involved in skeletal muscle regeneration
GO:0014898 cardiac muscle hypertrophy in response to stress
GO:0016571 histone methylation
GO:0021695 cerebellar cortex development
GO:0021766 hippocampus development
GO:0032259 methylation
GO:0032355 response to estradiol
GO:0034244 negative regulation of transcription elongation from RNA polymerase II promoter
GO:0035984 cellular response to trichostatin A
GO:0036333 hepatocyte homeostasis
GO:0042127 regulation of cell proliferation
GO:0042752 regulation of circadian rhythm
GO:0043406 positive regulation of MAP kinase activity
GO:0043433 negative regulation of sequence-specific DNA binding transcription factor activity
GO:0043547 positive regulation of GTPase activity
GO:0045605 negative regulation of epidermal cell differentiation
GO:0045814 negative regulation of gene expression, epigenetic
GO:0045892 negative regulation of transcription, DNA-templated
GO:0048387 negative regulation of retinoic acid receptor signaling pathway
GO:0048511 rhythmic process
GO:0050767 regulation of neurogenesis
GO:0051154 negative regulation of striated muscle cell differentiation
GO:0070301 cellular response to hydrogen peroxide
GO:0070314 G1 to G0 transition
GO:0070317 negative regulation of G0 to G1 transition
GO:0070734 histone H3-K27 methylation
GO:0071168 protein localization to chromatin
GO:0071902 positive regulation of protein serine/threonine kinase activity
GO:0097421 liver regeneration
GO:0098532 histone H3-K27 trimethylation
GO:1900006 positive regulation of dendrite development
GO:1904772 response to tetrachloromethane
GO:2000134 negative regulation of G1/S transition of mitotic cell cycle

Cellular Component:
GO:0000790 nuclear chromatin
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0035098 ESC/E(Z) complex
GO:0045120 pronucleus


-  Descriptions from all associated GenBank mRNAs
  DQ894179 - Synthetic construct Homo sapiens clone IMAGE:100008639; FLH168412.01L; RZPDo839G0791D enhancer of zeste homolog 2 (Drosophila) (EZH2) gene, encodes complete protein.
LF384102 - JP 2014500723-A/191605: Polycomb-Associated Non-Coding RNAs.
U61145 - Human enhancer of zeste homolog 2 (EZH2) mRNA, complete cds.
AB208895 - Homo sapiens mRNA for Enhancer of zeste homolog 2 variant protein.
LP955727 - Sequence 9 from Patent WO2017214373.
X95653 - H.sapiens mRNA for enhancer of zeste.
AK092676 - Homo sapiens cDNA FLJ35357 fis, clone PUAEN2000312, highly similar to ENHANCER OF ZESTE HOMOLOG 2.
AX747667 - Sequence 1192 from Patent EP1308459.
BC010858 - Homo sapiens enhancer of zeste homolog 2 (Drosophila), mRNA (cDNA clone MGC:9169 IMAGE:3901250), complete cds.
LF362067 - JP 2014500723-A/169570: Polycomb-Associated Non-Coding RNAs.
JD350740 - Sequence 331764 from Patent EP1572962.
AK302216 - Homo sapiens cDNA FLJ58341 complete cds, highly similar to Enhancer of zeste homolog 2.
MA619679 - JP 2018138019-A/191605: Polycomb-Associated Non-Coding RNAs.
MA597644 - JP 2018138019-A/169570: Polycomb-Associated Non-Coding RNAs.
MB474741 - JP 2019527037-A/9: DIAGNOSTIC AND THERAPEUTIC METHODS FOR CANCER.
JD117722 - Sequence 98746 from Patent EP1572962.
AK293239 - Homo sapiens cDNA FLJ58779 complete cds, highly similar to Enhancer of zeste homolog 2.
JD195248 - Sequence 176272 from Patent EP1572962.
JD303540 - Sequence 284564 from Patent EP1572962.
LF362068 - JP 2014500723-A/169571: Polycomb-Associated Non-Coding RNAs.
JF327843 - Homo sapiens histone-lysine N-methyltransferase (EZH2) mRNA, complete cds, alternatively spliced.
JF939048 - Homo sapiens isolate URRUTIAEZ07 EZH2b gene, complete cds, alternatively spliced.
AK314291 - Homo sapiens cDNA, FLJ95047, Homo sapiens enhancer of zeste homolog 2 (Drosophila) (EZH2),transcript variant 2, mRNA.
KJ891132 - Synthetic construct Homo sapiens clone ccsbBroadEn_00526 EZH2 gene, encodes complete protein.
AB590205 - Synthetic construct DNA, clone: pFN21AB6239, Homo sapiens EZH2 gene for enhancer of zeste homolog 2, without stop codon, in Flexi system.
LF362070 - JP 2014500723-A/169573: Polycomb-Associated Non-Coding RNAs.
LF362071 - JP 2014500723-A/169574: Polycomb-Associated Non-Coding RNAs.
LF362072 - JP 2014500723-A/169575: Polycomb-Associated Non-Coding RNAs.
LF362076 - JP 2014500723-A/169579: Polycomb-Associated Non-Coding RNAs.
LF362077 - JP 2014500723-A/169580: Polycomb-Associated Non-Coding RNAs.
LF362079 - JP 2014500723-A/169582: Polycomb-Associated Non-Coding RNAs.
LF362080 - JP 2014500723-A/169583: Polycomb-Associated Non-Coding RNAs.
LF362081 - JP 2014500723-A/169584: Polycomb-Associated Non-Coding RNAs.
LF362083 - JP 2014500723-A/169586: Polycomb-Associated Non-Coding RNAs.
LF362084 - JP 2014500723-A/169587: Polycomb-Associated Non-Coding RNAs.
AK303585 - Homo sapiens cDNA FLJ61023 complete cds, highly similar to Enhancer of zeste homolog 2.
LF362085 - JP 2014500723-A/169588: Polycomb-Associated Non-Coding RNAs.
AK303637 - Homo sapiens cDNA FLJ52824 complete cds, highly similar to Enhancer of zeste homolog 2.
LF362087 - JP 2014500723-A/169590: Polycomb-Associated Non-Coding RNAs.
LP955743 - Sequence 25 from Patent WO2017214373.
LF362090 - JP 2014500723-A/169593: Polycomb-Associated Non-Coding RNAs.
AY519465 - Homo sapiens EZH2 protein (EZH2) mRNA, partial cds.
LF362094 - JP 2014500723-A/169597: Polycomb-Associated Non-Coding RNAs.
LF362096 - JP 2014500723-A/169599: Polycomb-Associated Non-Coding RNAs.
LF362100 - JP 2014500723-A/169603: Polycomb-Associated Non-Coding RNAs.
JD033849 - Sequence 14873 from Patent EP1572962.
LF362104 - JP 2014500723-A/169607: Polycomb-Associated Non-Coding RNAs.
CU679825 - Synthetic construct Homo sapiens gateway clone IMAGE:100020059 5' read EZH2 mRNA.
LF362107 - JP 2014500723-A/169610: Polycomb-Associated Non-Coding RNAs.
LF362114 - JP 2014500723-A/169617: Polycomb-Associated Non-Coding RNAs.
LF362116 - JP 2014500723-A/169619: Polycomb-Associated Non-Coding RNAs.
MA597645 - JP 2018138019-A/169571: Polycomb-Associated Non-Coding RNAs.
MA597647 - JP 2018138019-A/169573: Polycomb-Associated Non-Coding RNAs.
MA597648 - JP 2018138019-A/169574: Polycomb-Associated Non-Coding RNAs.
MA597649 - JP 2018138019-A/169575: Polycomb-Associated Non-Coding RNAs.
MA597653 - JP 2018138019-A/169579: Polycomb-Associated Non-Coding RNAs.
MA597654 - JP 2018138019-A/169580: Polycomb-Associated Non-Coding RNAs.
MA597656 - JP 2018138019-A/169582: Polycomb-Associated Non-Coding RNAs.
MA597657 - JP 2018138019-A/169583: Polycomb-Associated Non-Coding RNAs.
MA597658 - JP 2018138019-A/169584: Polycomb-Associated Non-Coding RNAs.
MA597660 - JP 2018138019-A/169586: Polycomb-Associated Non-Coding RNAs.
MA597661 - JP 2018138019-A/169587: Polycomb-Associated Non-Coding RNAs.
MA597662 - JP 2018138019-A/169588: Polycomb-Associated Non-Coding RNAs.
MA597664 - JP 2018138019-A/169590: Polycomb-Associated Non-Coding RNAs.
MA597667 - JP 2018138019-A/169593: Polycomb-Associated Non-Coding RNAs.
MA597671 - JP 2018138019-A/169597: Polycomb-Associated Non-Coding RNAs.
MA597673 - JP 2018138019-A/169599: Polycomb-Associated Non-Coding RNAs.
MA597677 - JP 2018138019-A/169603: Polycomb-Associated Non-Coding RNAs.
MA597681 - JP 2018138019-A/169607: Polycomb-Associated Non-Coding RNAs.
MA597684 - JP 2018138019-A/169610: Polycomb-Associated Non-Coding RNAs.
MA597691 - JP 2018138019-A/169617: Polycomb-Associated Non-Coding RNAs.
MA597693 - JP 2018138019-A/169619: Polycomb-Associated Non-Coding RNAs.
MB474745 - JP 2019527037-A/13: DIAGNOSTIC AND THERAPEUTIC METHODS FOR CANCER.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_prc2Pathway - The PRC2 Complex Sets Long-term Gene Silencing Through Modification of Histone Tails

Reactome (by CSHL, EBI, and GO)

Protein Q15910 (Reactome details) participates in the following event(s):

R-HSA-3240957 Formation of PRC2-EZH2 complex
R-HSA-8954110 E2F6:TFDP1:EPC1 binds the PRC2 complex
R-HSA-212222 PRC2 recruits DNA methyltransferases
R-HSA-8943817 MECOM (EVI1) recruits polycomb repressor complexes (PRCs) to the PTEN gene promoter
R-HSA-3240295 PRC2-EZH2 trimethylates nucleosomes associated with CDKN2A promoter
R-HSA-5638332 PRC2 (EZH2) Core:AEBP2 methylates lysine-28 of histone H3 (H3K27)
R-HSA-212263 PRC2 trimethylates histone H3 at lysine-27
R-HSA-2559580 Oxidative Stress Induced Senescence
R-HSA-8953750 Transcriptional Regulation by E2F6
R-HSA-5617472 Activation of anterior HOX genes in hindbrain development during early embryogenesis
R-HSA-2559583 Cellular Senescence
R-HSA-212300 PRC2 methylates histones and DNA
R-HSA-8943724 Regulation of PTEN gene transcription
R-HSA-212436 Generic Transcription Pathway
R-HSA-5619507 Activation of HOX genes during differentiation
R-HSA-2262752 Cellular responses to stress
R-HSA-3214841 PKMTs methylate histone lysines
R-HSA-212165 Epigenetic regulation of gene expression
R-HSA-6807070 PTEN Regulation
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-1266738 Developmental Biology
R-HSA-8953897 Cellular responses to external stimuli
R-HSA-3247509 Chromatin modifying enzymes
R-HSA-74160 Gene expression (Transcription)
R-HSA-1257604 PIP3 activates AKT signaling
R-HSA-4839726 Chromatin organization
R-HSA-9006925 Intracellular signaling by second messengers
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: B2RAQ1, B3KS30, B7Z1D6, B7Z7L6, ENST00000320356.1, ENST00000320356.2, ENST00000320356.3, ENST00000320356.4, ENST00000320356.5, ENST00000320356.6, EZH2 , EZH2_HUMAN, KMT6, NM_004456, Q15755, Q15910, Q75MG3, Q92857, Q96FI6, uc317qvv.1, uc317qvv.2
UCSC ID: ENST00000320356.7_13
RefSeq Accession: NM_004456.5
Protein: Q15910 (aka EZH2_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene EZH2:
weaver (EZH2-Related Overgrowth)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.