5WUK | pdb_00005wuk

Crystal structure of EED [G255D] in complex with EZH2 peptide and EED226 compound

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Amidase_2	e5wukA1	A: alpha bundles	X: HAD domain-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: Amidase_2	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF11616	WD repeat binding protein EZH2 (EZH2_WD-Binding)	WD repeat binding protein EZH2	-	Family
A	PF00400	WD domain, G-beta repeat (WD40)	WD domain, G-beta repeat	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Histone-lysine N-methyltransferase EZH2	protein-lysine N-methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups lysine N-methyltransferase activity protein methyltransferase activity N-methyltransferase activity transferase activity methyltransferase activity catalytic activity S-adenosylmethionine-dependent methyltransferase activity protein binding binding histone binding RNA binding protein-lysine N-methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups lysine N-methyltransferase activity protein methyltransferase activity N-methyltransferase activity transferase activity methyltransferase activity catalytic activity S-adenosylmethionine-dependent methyltransferase activity protein binding binding histone binding RNA binding lncRNA binding nucleic acid binding histone H3K27 trimethyltransferase activity histone H3 methyltransferase activity histone H3K27 methyltransferase activity histone methyltransferase activity histone modifying activity primary miRNA binding chromatin binding promoter-specific chromatin binding DNA binding sequence-specific DNA binding double-stranded DNA binding core promoter sequence-specific DNA binding RNA polymerase II core promoter sequence-specific DNA binding RNA polymerase II transcription regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding transcription factor binding transcription coregulator binding transcription corepressor binding cis-regulatory region sequence-specific DNA binding RNA polymerase II cis-regulatory region sequence-specific DNA binding ribonucleoprotein complex binding protein-containing complex binding transcription corepressor activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity chromatin DNA binding nucleosome binding	developmental process multicellular organismal process head development animal organ development brain development nervous system development cerebellar cortex development multicellular organism development cerebellum development central nervous system development metencephalon development anatomical structure development hindbrain development system development developmental process multicellular organismal process head development animal organ development brain development nervous system development cerebellar cortex development multicellular organism development cerebellum development central nervous system development metencephalon development anatomical structure development hindbrain development system development negative regulation of stem cell differentiation regulation of biological process regulation of cellular process cellular developmental process regulation of developmental process negative regulation of developmental process biological regulation negative regulation of biological process regulation of cell differentiation stem cell differentiation cell differentiation regulation of stem cell differentiation negative regulation of cellular process cellular process negative regulation of cell differentiation cell cycle G1 to G0 transition cell cycle process methylation metabolic process transcription elongation by RNA polymerase II RNA metabolic process negative regulation of transcription elongation by RNA polymerase II regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of DNA-templated transcription elongation negative regulation of DNA-templated transcription regulation of transcription elongation by RNA polymerase II negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process negative regulation of DNA-templated transcription, elongation regulation of gene expression DNA-templated transcription elongation biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process subtelomeric heterochromatin formation cellular component organization cellular component biogenesis cellular component assembly chromatin organization chromatin remodeling cellular component organization or biogenesis heterochromatin formation epigenetic regulation of gene expression heterochromatin organization negative regulation of gene expression constitutive heterochromatin formation negative regulation of gene expression, epigenetic mitotic cell cycle process cell cycle phase transition G1/S transition of mitotic cell cycle cell cycle G1/S phase transition mitotic cell cycle mitotic cell cycle phase transition cellular response to stimulus intracellular receptor signaling pathway response to stimulus signaling negative regulation of signaling negative regulation of intracellular signal transduction regulation of retinoic acid receptor signaling pathway regulation of signal transduction hormone-mediated signaling pathway intracellular signal transduction negative regulation of cell communication cell communication cellular response to endogenous stimulus response to hormone regulation of intracellular signal transduction signal transduction cellular response to hormone stimulus regulation of signaling negative regulation of response to stimulus response to endogenous stimulus negative regulation of retinoic acid receptor signaling pathway retinoic acid receptor signaling pathway negative regulation of signal transduction cellular response to chemical stimulus regulation of response to stimulus response to chemical regulation of cell communication nuclear receptor-mediated signaling pathway regulation of protein modification process positive regulation of phosphorylation regulation of catalytic activity regulation of protein phosphorylation positive regulation of protein metabolic process positive regulation of biological process regulation of transferase activity positive regulation of phosphate metabolic process positive regulation of protein serine/threonine kinase activity positive regulation of metabolic process positive regulation of molecular function positive regulation of protein modification process phosphate-containing compound metabolic process positive regulation of macromolecule metabolic process protein metabolic process positive regulation of protein kinase activity phosphorus metabolic process protein modification process positive regulation of protein phosphorylation positive regulation of cellular process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process positive regulation of catalytic activity regulation of protein kinase activity regulation of molecular function positive regulation of kinase activity regulation of kinase activity macromolecule modification regulation of protein serine/threonine kinase activity regulation of phosphorylation regulation of phosphorus metabolic process negative regulation of striated muscle cell differentiation negative regulation of muscle cell differentiation regulation of striated muscle cell differentiation muscle cell differentiation muscle structure development regulation of muscle cell differentiation striated muscle cell differentiation regulation of transcription by RNA polymerase II negative regulation of transcription by RNA polymerase II tissue regeneration skeletal muscle tissue regeneration developmental growth skeletal muscle satellite cell maintenance involved in skeletal muscle regeneration growth maintenance of cell number regeneration epithelium development epidermal cell differentiation epidermis development tissue development epithelial cell differentiation skin development keratinocyte differentiation forebrain development pallium development telencephalon development hippocampus development limbic system development hemopoiesis B cell activation cell activation cell development mononuclear cell differentiation lymphocyte differentiation lymphocyte activation leukocyte activation B cell differentiation immune system process leukocyte differentiation rhythmic process circadian rhythm regulation of circadian rhythm regulation of epithelial to mesenchymal transition positive regulation of epithelial to mesenchymal transition mesenchyme development positive regulation of developmental process positive regulation of cell differentiation regulation of multicellular organismal process epithelial to mesenchymal transition positive regulation of multicellular organismal process mesenchymal cell differentiation positive regulation of hydrolase activity regulation of hydrolase activity regulation of GTPase activity positive regulation of GTPase activity localization protein localization to chromatin protein localization to chromosome protein localization to organelle macromolecule localization intracellular protein localization regulation of neurogenesis regulation of gliogenesis regulation of cell development regulation of nervous system development neurogenesis gliogenesis regulation of multicellular organismal development gland development animal organ regeneration liver development hepaticobiliary system development liver regeneration cellular response to nitrogen compound cellular response to trichostatin A response to oxygen-containing compound response to nitrogen compound response to trichostatin A response to antibiotic cellular response to oxygen-containing compound cellular response to antibiotic DNA methylation-dependent constitutive heterochromatin formation cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation cellular response to oxidative stress cellular response to chemical stress cellular response to hydrogen peroxide response to reactive oxygen species response to hydrogen peroxide response to oxidative stress cellular response to reactive oxygen species cellular response to stress response to stress multicellular organismal-level homeostasis homeostatic process homeostasis of number of cells hepatocyte homeostasis regulation of epidermal cell differentiation negative regulation of keratinocyte differentiation regulation of epithelial cell differentiation negative regulation of epidermis development negative regulation of epithelial cell differentiation negative regulation of epidermal cell differentiation regulation of epidermis development negative regulation of multicellular organismal process regulation of keratinocyte differentiation positive regulation of cell communication positive regulation of signal transduction regulation of MAP kinase activity intracellular signaling cassette positive regulation of MAP kinase activity positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade positive regulation of response to stimulus MAPK cascade positive regulation of signaling facultative heterochromatin formation regulation of cell cycle phase transition negative regulation of cell cycle regulation of cell cycle G1/S phase transition negative regulation of mitotic cell cycle regulation of mitotic cell cycle negative regulation of cell cycle phase transition regulation of cell cycle negative regulation of G1/S transition of mitotic cell cycle negative regulation of mitotic cell cycle phase transition regulation of cell cycle process negative regulation of cell cycle G1/S phase transition negative regulation of cell cycle process regulation of mitotic cell cycle phase transition regulation of G1/S transition of mitotic cell cycle positive regulation of locomotion regulation of cell motility positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization cell projection organization neuron projection development neuron differentiation dendrite development positive regulation of neuron projection development positive regulation of cell projection organization plasma membrane bounded cell projection organization regulation of cell projection organization positive regulation of dendrite development generation of neurons regulation of dendrite development neuron development regulation of plasma membrane bounded cell projection organization positive regulation of cell cycle positive regulation of cell cycle G1/S phase transition positive regulation of cell cycle phase transition positive regulation of cell cycle process trans-synaptic signaling synaptic transmission, GABAergic cell-cell signaling chemical synaptic transmission synaptic signaling anterograde trans-synaptic signaling regulation of kidney development renal system development kidney development regulatory ncRNA-mediated gene silencing regulatory ncRNA-mediated heterochromatin formation response to lipid response to estradiol response to tetrachloromethane muscle hypertrophy system process striated muscle adaptation striated muscle hypertrophy muscle system process muscle adaptation cardiac muscle adaptation cardiac muscle hypertrophy cardiac muscle hypertrophy in response to stress muscle hypertrophy in response to stress regulation of cytokine production involved in inflammatory response cytokine production regulation of cytokine production negative regulation of cytokine production involved in inflammatory response production of molecular mediator involved in inflammatory response defense response negative regulation of cytokine production cytokine production involved in inflammatory response inflammatory response	membrane-bounded organelle protein-containing complex histone methyltransferase complex intracellular anatomical structure catalytic complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle transferase complex intracellular organelle lumen PcG protein complex intracellular organelle cellular anatomical structure membrane-bounded organelle protein-containing complex histone methyltransferase complex intracellular anatomical structure catalytic complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle transferase complex intracellular organelle lumen PcG protein complex intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle methyltransferase complex ESC/E(Z) complex nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome heterochromatin chromosome, telomeric region chromosomal region pericentric heterochromatin chromosome, centromeric region chromatin silencing complex pronucleus synapse cell junction
A	Polycomb protein EED	transcription factor binding transcription coregulator binding transcription corepressor binding protein binding binding chromatin binding enzyme regulator activity enzyme activator activity molecular function activator activity molecular function regulator activity identical protein binding	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process developmental process multicellular organism development multicellular organismal process spinal cord development central nervous system development anatomical structure development nervous system development system development cellular developmental process neurogenesis gliogenesis oligodendrocyte differentiation glial cell differentiation cell differentiation cellular component organization cellular component biogenesis cellular component assembly chromatin organization chromatin remodeling cellular component organization or biogenesis heterochromatin formation epigenetic regulation of gene expression heterochromatin organization negative regulation of gene expression facultative heterochromatin formation negative regulation of gene expression, epigenetic sexual reproduction reproductive process cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction gamete generation epigenetic programming of gene expression multicellular organismal reproductive process genomic imprinting germ cell development transcription by RNA polymerase II regulation of transcription by RNA polymerase II negative regulation of transcription by RNA polymerase II regulation of adaxial/abaxial pattern formation pattern specification process adaxial/abaxial pattern specification regionalization regulation of multicellular organismal process response to peptide response to stimulus response to chemical response to cytokine response to leukemia inhibitory factor cellular response to cytokine stimulus cellular response to leukemia inhibitory factor	intracellular anatomical structure sex chromosome intracellular membraneless organelle chromatin chromosome heterochromatin intracellular organelle sex chromatin cellular anatomical structure organelle membraneless organelle cytoplasm cytosol membrane-bounded organelle intracellular anatomical structure sex chromosome intracellular membraneless organelle chromatin chromosome heterochromatin intracellular organelle sex chromatin cellular anatomical structure organelle membraneless organelle cytoplasm cytosol membrane-bounded organelle protein-containing complex histone methyltransferase complex catalytic complex nucleus membrane-enclosed lumen nuclear protein-containing complex intracellular membrane-bounded organelle transferase complex intracellular organelle lumen PcG protein complex nucleoplasm organelle lumen methyltransferase complex ESC/E(Z) complex nuclear lumen chromatin silencing complex pronucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR048358	EZH1/2, MCSS domain	Domain
B	IPR021654	Histone-lysine N-methyltransferase EZH1/EZH2, N-terminal	Domain
B	IPR041343	Polycomb repressive complex 2 subunit EZH1/EZH2, tri-helical domain	Domain
B	IPR046341	SET domain superfamily	Homologous Superfamily
B	IPR001214	SET domain	Domain
B	IPR045318	Histone-lysine N-methyltransferase EZH1/2-like	Family
B	IPR033467	Tesmin/TSO1-like CXC domain	Domain
B	IPR044439	EZH2, SET domain	Domain
B	IPR026489	CXC domain	Domain
B	IPR041355	Pre-SET CXC domain	Domain
B	IPR001005	SANT/Myb domain	Domain
A	IPR019775	WD40 repeat, conserved site	Conserved Site
A	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
A	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
A	IPR001680	WD40 repeat	Repeat
A	IPR051243	Polycomb group WD repeat-containing protein	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: Q15910	Weaver syndrome follicular lymphoma osteosarcoma diffuse large B-cell lymphoma prostate cancer breast carcinoma myelodysplastic syndrome juvenile myelomonocytic leukemia primary myelofibrosis craniosynostosis Upper Extremity Deformities, Congenital endometrial carcinoma breast cancer malignant mesothelioma myelodysplastic/myeloproliferative Neoplasm Weaver syndrome follicular lymphoma osteosarcoma diffuse large B-cell lymphoma prostate cancer breast carcinoma myelodysplastic syndrome juvenile myelomonocytic leukemia primary myelofibrosis craniosynostosis Upper Extremity Deformities, Congenital endometrial carcinoma breast cancer malignant mesothelioma myelodysplastic/myeloproliferative Neoplasm non-small cell lung carcinoma inflammatory bowel disease ovarian cancer aleukemic leukemia invasive ductal breast carcinoma pilocytic astrocytoma lung disease psoriasis Sjogren syndrome chronic myelomonocytic leukemia malignant ependymoma cystic fibrosis ductal breast carcinoma in situ glioblastoma myelofibrosis hepatocellular carcinoma oligodendroglioma adrenal cortex carcinoma intellectual disability pancreatic intraductal papillary-mucinous carcinoma astrocytic tumor lung adenocarcinoma prostate disease breast disease lymphatic system disease congenital anemia malignant glioma trigonocephaly malignant pancreatic neoplasm endometrial cancer medulloblastoma epithelioid sarcoma hematologic disease nasopharyngeal carcinoma IgA glomerulonephritis interstitial cystitis pancreatic intraductal papillary-mucinous neoplasm atypical teratoid rhabdoid tumor large cell medulloblastoma primitive neuroectodermal tumor lung cancer cancer lymphoma sinusitis
A	Pharos: O75530	schwannoma Cohen-Gibson syndrome malignant peripheral nerve sheath tumor perineurioma attention deficit hyperactivity disorder, inattentive type intellectual disability Nerve Sheath Tumors peripheral nervous system neoplasm Weaver syndrome epithelioid sarcoma cataract follicular lymphoma nerve sheath neoplasm

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.