Annotations: 8U2Y

Solution structure of the PHD6 finger of MLL4 bound to TET3

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
B	Linocin_M18	e8u2yB01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: Linocin_M18	ECOD (v294.2)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Histone-lysine N-methyltransferase 2D	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding transcription coactivator activity transcription regulator activity transcription coregulator activity protein-lysine N-methyltransferase activity histone H3 methyltransferase activity catalytic activity, acting on a protein DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding transcription coactivator activity transcription regulator activity transcription coregulator activity protein-lysine N-methyltransferase activity histone H3 methyltransferase activity catalytic activity, acting on a protein transferase activity, transferring one-carbon groups transferase activity S-adenosylmethionine-dependent methyltransferase activity histone methyltransferase activity histone H3K4 methyltransferase activity lysine N-methyltransferase activity protein methyltransferase activity histone modifying activity N-methyltransferase activity methyltransferase activity catalytic activity histone H3K4 monomethyltransferase activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	developmental process sexual reproduction cellular developmental process reproductive process oogenesis multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction female gamete generation gamete generation cell differentiation anatomical structure development germ cell development developmental process sexual reproduction cellular developmental process reproductive process oogenesis multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction female gamete generation gamete generation cell differentiation anatomical structure development germ cell development cellular process response to stimulus response to hormone response to endogenous stimulus response to chemical response to estrogen cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis beta-catenin-TCF complex assembly methylation metabolic process regulation of biological process cell population proliferation regulation of cellular process positive regulation of cell population proliferation regulation of cell population proliferation biological regulation positive regulation of biological process positive regulation of cellular process developmental cell growth developmental growth growth cell growth oocyte development oocyte growth oocyte differentiation RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process 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 regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process negative regulation of biological process chromatin organization negative regulation of cellular process chromatin remodeling negative regulation of macromolecule metabolic process heterochromatin formation epigenetic regulation of gene expression negative regulation of metabolic process heterochromatin organization negative regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of gene expression, epigenetic cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction intracellular receptor signaling pathway response to lipid signaling positive regulation of intracellular estrogen receptor signaling pathway regulation of signal transduction hormone-mediated signaling pathway intracellular signal transduction cell communication positive regulation of response to stimulus cellular response to endogenous stimulus regulation of intracellular signal transduction response to steroid hormone regulation of intracellular estrogen receptor signaling pathway regulation of intracellular steroid hormone receptor signaling pathway signal transduction nuclear receptor-mediated steroid hormone signaling pathway cellular response to steroid hormone stimulus steroid hormone receptor signaling pathway cellular response to hormone stimulus regulation of signaling positive regulation of intracellular signal transduction estrogen receptor signaling pathway positive regulation of intracellular steroid hormone receptor signaling pathway cellular response to chemical stimulus regulation of response to stimulus cellular response to lipid regulation of cell communication nuclear receptor-mediated signaling pathway positive regulation of signaling positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process positive regulation of metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process	membrane-bounded organelle MLL3/4 complex 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 intracellular organelle cellular anatomical structure membrane-bounded organelle MLL3/4 complex 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 intracellular organelle cellular anatomical structure nucleoplasm organelle lumen organelle methyltransferase complex nuclear lumen
A	Methylcytosine dioxygenase TET3	DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding DNA binding sequence-specific DNA binding binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding methyl-CpG binding small molecule binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding oxidoreductase activity catalytic activity, acting on DNA oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen DNA 5-methylcytosine dioxygenase activity catalytic activity, acting on a nucleic acid catalytic activity 2-oxoglutarate-dependent dioxygenase activity dioxygenase activity	regulation of biosynthetic process epigenetic programming of gene expression regulation of biological process regulation of cellular process epigenetic programming in the zygotic pronuclei epigenetic regulation of gene expression epigenetic programing of male pronucleus biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process cellular component organization regulation of gene expression biosynthetic process chromatin organization regulation of biosynthetic process epigenetic programming of gene expression regulation of biological process regulation of cellular process epigenetic programming in the zygotic pronuclei epigenetic regulation of gene expression epigenetic programing of male pronucleus biological regulation regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process cellular component organization regulation of gene expression biosynthetic process chromatin organization chromatin remodeling cellular process regulation of macromolecule biosynthetic process metabolic process cellular component organization or biogenesis macromolecule metabolic process regulation of metabolic process carbohydrate derivative biosynthetic process glycoprotein biosynthetic process carbohydrate derivative metabolic process primary metabolic process glycoprotein metabolic process protein O-linked glycosylation protein metabolic process positive regulation of DNA-templated transcription positive regulation of biological process RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process positive regulation of cellular process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process regulation of DNA-templated transcription positive regulation of gene expression via chromosomal CpG island demethylation positive regulation of gene expression, epigenetic transcription initiation at RNA polymerase II promoter DNA-templated transcription initiation positive regulation of gene expression transcription initiation-coupled chromatin remodeling	intracellular organelle cellular anatomical structure intracellular anatomical structure organelle membraneless organelle intracellular membraneless organelle chromosome membrane-bounded organelle female pronucleus nucleus pronucleus intracellular membrane-bounded organelle cytoplasm male pronucleus

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR037890	KMT2D, SET domain	Domain
B	IPR001965	Zinc finger, PHD-type	Domain
B	IPR046341	SET domain superfamily	Homologous Superfamily
B	IPR047000	KMT2D, PHD3 domain	Domain
B	IPR001214	SET domain	Domain
B	IPR019787	Zinc finger, PHD-finger	Domain
B	IPR011011	Zinc finger, FYVE/PHD-type	Homologous Superfamily
B	IPR041964	KMT2D, ePHD2 domain	Domain
B	IPR003616	Post-SET domain	Domain
B	IPR034732	Extended PHD (ePHD) domain	Domain
B	IPR013083	Zinc finger, RING/FYVE/PHD-type	Homologous Superfamily
B	IPR003889	FY-rich, C-terminal	Conserved Site
B	IPR041961	KMT2D, ePHD1 domain	Domain
B	IPR046999	KMT2D, PHD5 domain	Domain
B	IPR003888	FY-rich, N-terminal	Conserved Site
B	IPR001841	Zinc finger, RING-type	Domain
B	IPR009071	High mobility group box domain	Domain
B	IPR036910	High mobility group box domain superfamily	Homologous Superfamily
A	IPR002857	Zinc finger, CXXC-type	Domain
A	IPR046942	Methylcytosine dioxygenase TET1-3, oxygenase domain	Domain
A	IPR024779	2OGFeDO JBP1/TET, oxygenase domain	Domain
A	IPR040175	Methylcytosine dioxygenase TET1/2/3	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	: O14686	Kabuki syndrome esophageal squamous cell carcinoma urinary bladder cancer follicular lymphoma diffuse large B-cell lymphoma male infertility T-cell non-Hodgkin lymphoma Sezary syndrome breast carcinoma Kabuki syndrome 1 benign breast phyllodes tumor prostate cancer Lymphoma, Large-Cell, Follicular adrenal medulla cancer osteoporosis Kabuki syndrome esophageal squamous cell carcinoma urinary bladder cancer follicular lymphoma diffuse large B-cell lymphoma male infertility T-cell non-Hodgkin lymphoma Sezary syndrome breast carcinoma Kabuki syndrome 1 benign breast phyllodes tumor prostate cancer Lymphoma, Large-Cell, Follicular adrenal medulla cancer osteoporosis benign neoplasm of adrenal gland breast cancer coloboma attention deficit hyperactivity disorder, inattentive type phyllodes tumor craniosynostosis malignant breast phyllodes tumor osteogenesis imperfecta bipolar disorder urinary bladder neoplasm cancer intellectual disability
A	: O43151	attention deficit hyperactivity disorder, inattentive type ductal breast carcinoma in situ lung cancer non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma subependymal giant cell astrocytoma autism spectrum disorder invasive ductal breast carcinoma malignant glioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm systemic lupus erythematosus Autism Spectrum Disorders large cell medulloblastoma malignant mesothelioma attention deficit hyperactivity disorder, inattentive type ductal breast carcinoma in situ lung cancer non-small cell lung carcinoma pancreatic intraductal papillary-mucinous carcinoma subependymal giant cell astrocytoma autism spectrum disorder invasive ductal breast carcinoma malignant glioma osteosarcoma pancreatic intraductal papillary-mucinous neoplasm systemic lupus erythematosus Autism Spectrum Disorders large cell medulloblastoma malignant mesothelioma ovarian cancer pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia

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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.

8U2Y | pdb_00008u2y

Solution structure of the PHD6 finger of MLL4 bound to TET3

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

Pharos: Disease Associations Pharos Homepage Annotation