1N46 | pdb_00001n46

CRYSTAL STRUCTURE OF HUMAN TR BETA LIGAND-BINDING DOMAIN COMPLEXED WITH A POTENT SUBTYPE-SELECTIVE THYROMIMETIC

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
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)
B	d1n46b_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Thyroid hormone receptor beta (TR-beta)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d1n46a_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Thyroid hormone receptor beta (TR-beta)	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)
B	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8033026	3001442	SCOP2B (2022-06-29)
A	SCOP2 Family	Nuclear receptor ligand-binding domain	8020646	4001384	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Nuclear receptor ligand-binding domain	8033026	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)
B		e1n46B1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: p53 tetramerization domain	H: p53 tetramerization domain	T: Cation_efflux	F:	ECOD (20:10:01)
A		e1n46A1	A: Nuclear receptor ligand-binding domain	X: Nuclear receptor ligand-binding domain	H: Nuclear receptor ligand-binding domain	T: Hormone_recep	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

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

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	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	Thyroid hormone receptor Beta-1	thyroid hormone binding binding hormone binding 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 transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding transcription regulator activity thyroid hormone binding binding hormone binding 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 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 transcription factor activity, RNA polymerase II-specific transcription factor binding transcription coregulator binding protein binding transcription coactivator binding chromatin binding chromatin DNA binding nuclear receptor activity molecular transducer activity signaling receptor activity ligand-modulated transcription factor activity cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding enzyme binding	heart process multicellular organismal process system process regulation of biological process regulation of heart contraction regulation of system process biological regulation circulatory system process regulation of blood circulation regulation of multicellular organismal process heart contraction blood circulation developmental process cellular developmental process heart process multicellular organismal process system process regulation of biological process regulation of heart contraction regulation of system process biological regulation circulatory system process regulation of blood circulation regulation of multicellular organismal process heart contraction blood circulation developmental process cellular developmental process cell differentiation cellular process reproductive process negative regulation of female receptivity multicellular organismal reproductive process female mating behavior mating behavior behavior regulation of female receptivity reproductive behavior regulation of biological quality epithelium development tube development animal organ development respiratory tube development lung epithelium development type I pneumocyte differentiation tissue development epithelial cell differentiation lung epithelial cell differentiation multicellular organism development lung cell differentiation anatomical structure development lung development respiratory system development system development cellular response to stimulus regulation of cellular process intracellular receptor signaling pathway response to stimulus signaling response to endogenous stimulus retinoic acid receptor signaling pathway hormone-mediated signaling pathway intracellular signal transduction cell communication cellular response to endogenous stimulus cellular response to chemical stimulus response to hormone response to chemical signal transduction nuclear receptor-mediated signaling pathway cellular response to hormone stimulus RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process metabolic process macromolecule metabolic process retinal cell apoptotic process neuron apoptotic process retinal cone cell apoptotic process apoptotic process cell death programmed cell death female courtship behavior courtship behavior mRNA transcription by RNA polymerase II mRNA transcription mRNA metabolic process transcription by RNA polymerase II sensory perception nervous system process sensory perception of sound sensory perception of mechanical stimulus positive regulation of cell communication positive regulation of signal transduction positive regulation of biological process regulation of signal transduction regulation of thyroid hormone receptor signaling pathway positive regulation of response to stimulus regulation of intracellular signal transduction positive regulation of thyroid hormone receptor signaling pathway positive regulation of cellular process regulation of signaling thyroid hormone receptor signaling pathway positive regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication positive regulation of signaling response to thyroid hormone cellular response to thyroid hormone stimulus negative regulation of biological process regulation of primary metabolic process negative regulation of RNA 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 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 regulation of macromolecule metabolic process regulation of gene expression negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process sensory organ development photoreceptor cell differentiation visual system development retina development in camera-type eye cell development neural retina development eye morphogenesis neurogenesis neuron differentiation retinal cone cell differentiation eye photoreceptor cell differentiation animal organ morphogenesis sensory system development photoreceptor cell development camera-type eye morphogenesis eye development eye photoreceptor cell development retinal cone cell development nervous system development camera-type eye photoreceptor cell differentiation generation of neurons retina morphogenesis in camera-type eye anatomical structure morphogenesis sensory organ morphogenesis neuron development camera-type eye development positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of 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	RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle membrane-enclosed lumen intracellular organelle lumen nucleoplasm RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex intracellular anatomical structure nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle intracellular organelle cellular anatomical structure organelle membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen membraneless organelle intracellular membraneless organelle chromatin chromosome nuclear body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001628	Zinc finger, nuclear hormone receptor-type	Domain
A, B	IPR050234	Nuclear hormone receptor family NR1 subfamily	Family
A, B	IPR001723	Nuclear hormone receptor	Family
A, B	IPR001728	Thyroid hormone receptor	Family
A, B	IPR013088	Zinc finger, NHR/GATA-type	Homologous Superfamily
A, B	IPR000536	Nuclear hormone receptor, ligand-binding domain	Domain
A, B	IPR035500	Nuclear hormone receptor-like domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B	Pharos: P10828	thyroid hormone resistance, generalized, autosomal dominant thyroid hormone resistance, generalized, autosomal recessive thyroid hormone resistance syndrome selective pituitary resistance to thyroid hormone Craniofacial Abnormalities hypothyroidism atrial fibrillation goiter hereditary spastic paraplegia interstitial cystitis lung cancer adrenal cortex carcinoma malignant ependymoma atypical teratoid rhabdoid tumor breast carcinoma thyroid hormone resistance, generalized, autosomal dominant thyroid hormone resistance, generalized, autosomal recessive thyroid hormone resistance syndrome selective pituitary resistance to thyroid hormone Craniofacial Abnormalities hypothyroidism atrial fibrillation goiter hereditary spastic paraplegia interstitial cystitis lung cancer adrenal cortex carcinoma malignant ependymoma atypical teratoid rhabdoid tumor breast carcinoma oligodendroglioma ovarian cancer primitive neuroectodermal tumor sickle cell anemia endogenous depression thyroid gland follicular carcinoma generalized resistance to thyroid hormone Hashimoto thyroiditis invasive ductal breast carcinoma lung carcinoma astrocytic tumor malignant glioma Becker muscular dystrophy myxedema congenital diaphragmatic hernia osteogenesis imperfecta cystic fibrosis pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia psoriasis ductal breast carcinoma in situ familial hyperlipidemia glioblastoma ulcerative colitis head and neck cancer intellectual disability large cell medulloblastoma malignant colon neoplasm medulloblastoma breast cancer congenital hypothyroidism osteosarcoma peripheral resistance to thyroid hormones endemic goiter thyroid cancer

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.