3CJW

Crystal structure of the human COUP-TFII ligand binding domain

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3cjwa1	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	automated matches	automated matches	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d3cjwa2	Artifacts	Tags	Tags	Tags	N-terminal Tags	Human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Nuclear receptor ligand-binding domain	8071631	4001384	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Nuclear receptor ligand-binding domain	8071632	3001442	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Hormone_recep	e3cjwA1	A: alpha arrays	X: Nuclear receptor ligand-binding domain (From Topology)	H: Nuclear receptor ligand-binding domain (From Topology)	T: Nuclear receptor ligand-binding domain	F: Hormone_recep	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.565.10	Mainly Alpha	Orthogonal Bundle	Retinoid X Receptor	Retinoid X Receptor	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	COUP transcription factor 2	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 organic cyclic compound binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding transcription regulator activity DNA-binding transcription factor activity 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 organic cyclic compound binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding transcription regulator activity DNA-binding transcription factor activity identical protein binding protein binding protein homodimerization activity protein dimerization activity nuclear receptor activity DNA-binding transcription factor activity, RNA polymerase II-specific molecular transducer activity ligand-activated transcription factor activity signaling receptor activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding retinoic acid binding organic acid binding isoprenoid binding retinoid binding anion binding lipid binding carboxylic acid binding monocarboxylic acid binding	regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process regulation of cellular process negative regulation of biological process negative regulation of cellular metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription regulation of biological process cellular metabolic process negative regulation of metabolic process primary metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process organic substance metabolic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process biological regulation regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process negative regulation of biosynthetic process cellular process developmental process cellular developmental process cell differentiation sexual reproduction reproductive process fertilization multicellular organism development multicellular organismal process anatomical structure development pattern specification process radial pattern formation regionalization muscle structure development skeletal muscle organ development skeletal muscle tissue development animal organ development muscle tissue development muscle organ development tissue development regulation of catalytic activity negative regulation of cell cycle negative regulation of catalytic activity regulation of cyclin-dependent protein kinase activity regulation of transferase activity negative regulation of kinase activity negative regulation of transferase activity regulation of phosphate metabolic process regulation of cyclin-dependent protein serine/threonine kinase activity phosphate-containing compound metabolic process negative regulation of protein modification process cell cycle phosphorus metabolic process protein modification process negative regulation of protein metabolic process protein phosphorylation phosphorylation regulation of protein metabolic process regulation of molecular function regulation of kinase activity negative regulation of protein phosphorylation macromolecule modification regulation of protein serine/threonine kinase activity regulation of phosphorus metabolic process regulation of protein modification process regulation of protein phosphorylation negative regulation of phosphate metabolic process negative regulation of cyclin-dependent protein serine/threonine kinase activity negative regulation of protein serine/threonine kinase activity protein metabolic process regulation of cell cycle organonitrogen compound metabolic process negative regulation of cyclin-dependent protein kinase activity negative regulation of molecular function negative regulation of protein kinase activity regulation of protein kinase activity negative regulation of phosphorus metabolic process regulation of phosphorylation negative regulation of phosphorylation placenta blood vessel development placenta development vasculature development circulatory system development blood vessel development system development cell differentiation involved in embryonic placenta development chordate embryonic development developmental process involved in reproduction embryo development in utero embryonic development trophoblast giant cell differentiation embryonic placenta development embryo development ending in birth or egg hatching embryonic organ development multi-multicellular organism process maternal process involved in female pregnancy multicellular organismal reproductive process maternal placenta development female pregnancy multi-organism reproductive process head development forebrain development brain development nervous system development central nervous system development negative regulation of locomotion regulation of cell motility endothelial cell migration negative regulation of endothelial cell migration tissue migration negative regulation of epithelial cell migration ameboidal-type cell migration regulation of cell migration regulation of endothelial cell migration cell migration regulation of multicellular organismal process epithelial cell migration cell motility regulation of epithelial cell migration locomotion negative regulation of cell migration epithelium migration regulation of locomotion negative regulation of cell motility negative regulation of multicellular organismal process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of macromolecule metabolic process positive regulation of nucleobase-containing compound metabolic process positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of biological process positive regulation of cellular metabolic process positive regulation of biosynthetic process positive regulation of cellular process positive regulation of RNA biosynthetic process positive regulation of cellular biosynthetic process neuron migration interneuron migration generation of neurons neurogenesis transcription by RNA polymerase II regulation of transcription by RNA polymerase II negative regulation of transcription by RNA polymerase II positive regulation of systemic arterial blood pressure system process regulation of systemic arterial blood pressure circulatory system process regulation of blood pressure positive regulation of blood pressure regulation of biological quality blood circulation endothelial cell fate commitment epithelium development endothelial cell differentiation endothelium development epithelial cell fate commitment lymphatic endothelial cell differentiation epithelial cell differentiation lymphatic endothelial cell fate commitment lymph vessel development cell fate commitment positive regulation of transcription by RNA polymerase II anterior/posterior pattern specification blood vessel morphogenesis tube development anatomical structure morphogenesis tube morphogenesis negative regulation of cell population proliferation cell population proliferation endothelial cell proliferation negative regulation of endothelial cell proliferation regulation of endothelial cell proliferation regulation of cell population proliferation regulation of epithelial cell proliferation epithelial cell proliferation negative regulation of epithelial cell proliferation gonad development reproductive system development female gonad development sex differentiation female sex differentiation development of primary female sexual characteristics development of primary sexual characteristics reproductive structure development response to organic substance response to lipid response to stimulus response to chemical response to estradiol response to oxygen-containing compound response to organic cyclic compound	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001628	Zinc finger, nuclear hormone receptor-type	Domain
A	IPR001723	Nuclear hormone receptor	Family
A	IPR013088	Zinc finger, NHR/GATA-type	Homologous Superfamily
A	IPR000536	Nuclear hormone receptor, ligand-binding domain	Domain
A	IPR035500	Nuclear hormone receptor-like domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P24468	endometriosis congenital heart defects, multiple types, 4 female infertility malignant ependymoma malignant pancreatic neoplasm oligodendroglioma partial atrioventricular canal psoriasis astrocytic tumor Sterility, Postpartum congenital diaphragmatic hernia Emery-Dreifuss muscular dystrophy glioblastoma large cell medulloblastoma malignant glioma endometriosis congenital heart defects, multiple types, 4 female infertility malignant ependymoma malignant pancreatic neoplasm oligodendroglioma partial atrioventricular canal psoriasis astrocytic tumor Sterility, Postpartum congenital diaphragmatic hernia Emery-Dreifuss muscular dystrophy glioblastoma large cell medulloblastoma malignant glioma medulloblastoma ovarian cancer Pick disease pulmonary hypertension attention deficit hyperactivity disorder, inattentive type drug-induced liver injury endogenous depression intellectual disability lung adenocarcinoma malignant mesothelioma myopathy pancreatic ductal adenocarcinoma primitive neuroectodermal tumor Sjogren syndrome atypical teratoid rhabdoid tumor dermatomyositis Duchenne muscular dystrophy juvenile dermatomyositis

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.