8VYT | pdb_00008vyt

Crystal Structure of the ER-alpha Ligand-binding Domain (L372S, L536S) in complex with k-411

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8044103	3001442	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8044103	3001442	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8044103	3001442	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8044103	3001442	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	V-set	e8vytD1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: V-set	ECOD (v295.2)
C	V-set	e8vytC1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: V-set	ECOD (v295.2)
B	V-set	e8vytB1	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: V-set	ECOD (v295.2)
A	Cytochrom_B559a	e8vytA01	A: alpha arrays	X: Hypothetical protein YqbG-like	H: Hypothetical protein YqbG-like	T: alpha/beta-Hydrolases	F: Cytochrom_B559a	ECOD (v295.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00104	Ligand-binding domain of nuclear hormone receptor (Hormone_recep)	Ligand-binding domain of nuclear hormone receptor	This all helical domain is involved in binding the hormone in these receptors.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Estrogen receptor	transcription factor binding RNA polymerase binding protein binding binding RNA polymerase II complex binding general transcription initiation factor binding RNA polymerase core enzyme binding enzyme binding RNA polymerase II general transcription initiation factor binding TFIIB-class transcription factor binding transcription coregulator binding 14-3-3 protein binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity transcription factor binding RNA polymerase binding protein binding binding RNA polymerase II complex binding general transcription initiation factor binding RNA polymerase core enzyme binding enzyme binding RNA polymerase II general transcription initiation factor binding TFIIB-class transcription factor binding transcription coregulator binding 14-3-3 protein binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity DNA binding sequence-specific DNA 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 estrogen response element binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding TBP-class protein binding enzyme regulator activity molecular function regulator activity nitric-oxide synthase regulator activity nuclear receptor activity molecular transducer activity signaling receptor activity ligand-modulated transcription factor activity calmodulin binding DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity ATPase binding identical protein binding transcription corepressor binding chromatin binding nuclear steroid receptor activity nuclear estrogen receptor activity kinase binding protein kinase binding transcription coactivator binding steroid binding lipid binding beta-catenin binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding DNA-binding transcription factor binding nuclear estrogen receptor binding	regulation of biosynthetic process regulation of nitric oxide biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process reactive nitrogen species metabolic process nitric oxide metabolic process positive regulation of metabolic process nitric oxide biosynthetic process biosynthetic process positive regulation of biosynthetic process cellular process metabolic process regulation of biosynthetic process regulation of nitric oxide biosynthetic process regulation of biological process regulation of cellular process biological regulation positive regulation of biological process reactive nitrogen species metabolic process nitric oxide metabolic process positive regulation of metabolic process nitric oxide biosynthetic process biosynthetic process positive regulation of biosynthetic process cellular process metabolic process regulation of nitric oxide metabolic process positive regulation of nitric oxide biosynthetic process regulation of metabolic process positive regulation of cellular process transcription preinitiation complex assembly RNA metabolic process cellular component organization cellular component biogenesis protein-DNA complex organization RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process cellular component assembly transcription by RNA polymerase II protein-containing complex assembly cellular component organization or biogenesis transcription initiation at RNA polymerase II promoter protein-containing complex organization protein-DNA complex assembly primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process DNA-templated transcription initiation nucleic acid metabolic process RNA polymerase II preinitiation complex assembly macromolecule metabolic process positive regulation of nitric-oxide synthase activity regulation of molecular function positive regulation of molecular function regulation of catalytic activity regulation of nitric-oxide synthase activity positive regulation of catalytic activity regulation of oxidoreductase activity positive regulation of oxidoreductase activity cellular response to stimulus response to lipid response to stimulus signaling response to endogenous stimulus hormone-mediated signaling pathway cell communication cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical response to steroid hormone cellular response to lipid signal transduction cellular response to steroid hormone stimulus steroid hormone receptor signaling pathway cellular response to hormone stimulus regulation of primary metabolic process regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of macromolecule metabolic process regulation of gene expression regulation of macromolecule biosynthetic process regulation of DNA-templated transcription intracellular receptor signaling pathway intracellular signal transduction nuclear receptor-mediated steroid hormone signaling pathway estrogen receptor signaling pathway nuclear receptor-mediated signaling pathway phospholipase C-activating G protein-coupled receptor signaling pathway G protein-coupled receptor signaling pathway response to estrogen cellular response to estrogen stimulus negative regulation of biological process negative regulation of RNA biosynthetic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process positive regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process positive regulation of cytosolic calcium ion concentration regulation of biological quality negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of canonical NF-kappaB signal transduction regulation of signal transduction negative regulation of cell communication regulation of intracellular signal transduction intracellular signaling cassette regulation of signaling negative regulation of response to stimulus negative regulation of signal transduction canonical NF-kappaB signal transduction regulation of response to stimulus regulation of cell communication regulation of canonical NF-kappaB signal transduction localization protein localization to chromatin protein localization to chromosome protein localization to organelle macromolecule localization intracellular protein localization negative regulation of miRNA transcription miRNA transcription regulation of miRNA metabolic process miRNA metabolic process negative regulation of miRNA metabolic process regulation of miRNA transcription response to oxygen-containing compound cellular response to oxygen-containing compound response to estradiol cellular response to estradiol stimulus negative regulation of gene expression developmental process stem cell differentiation cellular developmental process cell differentiation chromatin organization chromatin remodeling muscle cell apoptotic process smooth muscle cell apoptotic process negative regulation of programmed cell death regulation of apoptotic process regulation of muscle cell apoptotic process regulation of programmed cell death cell death regulation of smooth muscle cell apoptotic process negative regulation of smooth muscle cell apoptotic process negative regulation of apoptotic process negative regulation of muscle cell apoptotic process apoptotic process programmed cell death	cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle Golgi apparatus intracellular membrane-bounded organelle cellular anatomical structure membrane intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle Golgi apparatus intracellular membrane-bounded organelle endomembrane system cell periphery plasma membrane nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen protein-containing complex euchromatin

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR001628	Zinc finger, nuclear hormone receptor-type	Domain
A, B, C, D	IPR050200	Nuclear hormone receptor family NR3 subfamily	Family
A, B, C, D	IPR013088	Zinc finger, NHR/GATA-type	Homologous Superfamily
A, B, C, D	IPR024736	Oestrogen-type nuclear receptor final C-terminal domain	Domain
A, B, C, D	IPR001292	Estrogen receptor	Family
A, B, C, D	IPR024178	Estrogen receptor/oestrogen-related receptor	Family
A, B, C, D	IPR001723	Nuclear hormone receptor	Family
A, B, C, D	IPR046944	Estrogen receptor, N-terminal	Domain
A, B, C, D	IPR000536	Nuclear hormone receptor, ligand-binding domain	Domain
A, B, C, D	IPR035500	Nuclear hormone receptor-like domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, C, D	: P03372	breast carcinoma uterine corpus leiomyoma prostate cancer carcinoma estrogen resistance syndrome obesity disorder Alzheimer disease bone disease breast cancer female infertility glomerulonephritis leiomyoma migraine with or without aura, susceptibility to, 1 Musculoskeletal Pain lung cancer breast carcinoma uterine corpus leiomyoma prostate cancer carcinoma estrogen resistance syndrome obesity disorder Alzheimer disease bone disease breast cancer female infertility glomerulonephritis leiomyoma migraine with or without aura, susceptibility to, 1 Musculoskeletal Pain lung cancer protoplasmic astrocytoma male infertility fibrillary astrocytoma tubular adenocarcinoma coronary artery disease astrocytic tumor urinary bladder cancer atherosclerosis pilocytic astrocytoma leukemia myocardial infarction prostate intraepithelial neoplasia adenocarcinoma sarcomatoid carcinoma oligospermia subependymal giant cell astrocytoma gemistocytic astrocytoma granular cell carcinoma hereditary breast carcinoma juvenile pilocytic astrocytoma liver cancer endometrial carcinoma endometriosis neuroblastoma childhood cerebral astrocytoma anaplastic astrocytoma diffuse astrocytoma peripheral neuropathy migraine disorder benign mesothelioma ductal breast carcinoma in situ endogenous depression endometrial hyperplasia cardiac arrest colorectal cancer ovarian cancer mesothelioma cystic fibrosis pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia hepatocellular carcinoma infertility disorder invasive ductal breast carcinoma postmenopausal osteoporosis bipolar disorder liver neoplasm breast adenocarcinoma endometrial cancer psoriasis estrogen-receptor negative breast cancer adrenal cortex carcinoma osteoporosis amelogenesis imperfecta type 1G ovarian carcinoma undifferentiated carcinoma cribriform carcinoma pancreatic intraductal papillary-mucinous carcinoma astrocytoma (excluding glioblastoma) urinary bladder neoplasm depressive disorder peripheral nervous system disease atopic eczema pituitary cancer interstitial cystitis attention deficit hyperactivity disorder, inattentive type drug psychosis lung benign neoplasm primary ovarian failure male breast carcinoma cancer malignant mesothelioma schizophrenia cerebral astrocytoma osteogenesis imperfecta mammary neoplasms, animal osteosarcoma ovarian neoplasm arteriosclerosis disorder cribriform carcinoma of breast pancreatic intraductal papillary-mucinous neoplasm

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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.