3FS1

Crystal structure of HNF4a LBD in complex with the ligand and the coactivator PGC-1a fragment

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)
A	d3fs1a_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	automated matches	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	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8038367	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)
A	Hormone_recep	e3fs1A1	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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	Hepatocyte nuclear factor 4-alpha	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding organic cyclic compound binding nucleic acid binding transcription regulatory region nucleic acid binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity nuclear receptor activity molecular transducer activity DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding organic cyclic compound binding nucleic acid binding transcription regulatory region nucleic acid binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity nuclear receptor activity molecular transducer activity ligand-activated transcription factor activity signaling receptor activity DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity protein binding signaling receptor binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding RNA polymerase II cis-regulatory region sequence-specific DNA binding fatty acid binding organic acid binding ion binding anion binding lipid binding carboxylic acid binding monocarboxylic acid binding small molecule binding chromatin binding identical protein binding protein homodimerization activity protein dimerization activity cation binding transition metal ion binding zinc ion binding metal ion binding	multicellular organismal process regulation of body fluid levels wound healing response to stimulus hemostasis biological regulation blood coagulation response to stress coagulation regulation of biological quality response to wounding phospholipid homeostasis chemical homeostasis homeostatic process multicellular organismal process regulation of body fluid levels wound healing response to stimulus hemostasis biological regulation blood coagulation response to stress coagulation regulation of biological quality response to wounding phospholipid homeostasis chemical homeostasis homeostatic process lipid homeostasis triglyceride homeostasis acylglycerol homeostasis regulation of biological process regulation of growth regulation of cellular component organization regulation of cellular process negative regulation of biological process growth negative regulation of cell growth regulation of cell growth cell growth cellular component organization negative regulation of growth negative regulation of cellular process cellular process cellular component organization or biogenesis developmental process regulation of embryonic development regulation of multicellular organismal development regulation of gastrulation regulation of developmental process embryonic morphogenesis embryo development gastrulation multicellular organism development anatomical structure morphogenesis anatomical structure development regulation of multicellular organismal process regulation of anatomical structure morphogenesis protein localization regulation of localization establishment of protein localization nitrogen compound transport cell communication localization cellular macromolecule localization regulation of peptide hormone secretion regulation of hormone levels establishment of protein localization to extracellular region protein secretion establishment of localization regulation of protein secretion regulation of secretion cellular localization regulation of hormone secretion regulation of protein localization regulation of peptide secretion transport signaling hormone secretion protein localization to extracellular region peptide secretion secretion by cell regulation of secretion by cell amide transport signal release regulation of signaling secretion regulation of transport regulation of peptide transport regulation of establishment of protein localization cell-cell signaling export from cell regulation of protein transport peptide transport protein transport regulation of cellular localization regulation of insulin secretion peptide hormone secretion macromolecule localization hormone transport regulation of cell communication insulin secretion cellular response to stimulus cellular response to nitrogen compound response to peptide hormone regulation of signal transduction cellular response to growth hormone stimulus cell surface receptor protein tyrosine kinase signaling pathway cellular response to endogenous stimulus regulation of growth hormone receptor signaling pathway response to hormone signal transduction enzyme-linked receptor protein signaling pathway cellular response to hormone stimulus growth hormone receptor signaling pathway cell surface receptor signaling pathway response to endogenous stimulus cellular response to peptide hormone stimulus response to oxygen-containing compound response to nitrogen compound cellular response to oxygen-containing compound response to growth hormone cellular response to chemical stimulus regulation of response to stimulus response to chemical regulation of biosynthetic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of gene expression signal transduction involved in regulation of gene expression biosynthetic process regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of 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 nucleobase-containing compound metabolic process primary metabolic process 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 glucose homeostasis carbohydrate homeostasis negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule metabolic process negative regulation of DNA-templated transcription negative regulation of metabolic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process cellular developmental process cell differentiation regulation of lipid metabolic process lipid metabolic process rhythmic process circadian rhythm regulation of circadian rhythm ornithine metabolic process oxoacid metabolic process carboxylic acid metabolic process amino acid metabolic process organic acid metabolic process alpha-amino acid metabolic process non-proteinogenic amino acid metabolic process regulation of small molecule metabolic process regulation of ornithine metabolic process regulation of amino acid metabolic process small molecule metabolic process sterol homeostasis cholesterol homeostasis response to hexose response to monosaccharide response to carbohydrate response to glucose cellular response to xenobiotic stimulus xenobiotic metabolic process response to xenobiotic stimulus negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation reproductive process sex differentiation developmental process involved in reproduction	cellular anatomical structure intracellular anatomical structure cytoplasm intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen cellular anatomical structure intracellular anatomical structure cytoplasm intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen
B	PPARgamma Coactivator-1a (PGC-1a)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001628	Zinc finger, nuclear hormone receptor-type	Domain
A	IPR013088	Zinc finger, NHR/GATA-type	Homologous Superfamily
A	IPR050274	Nuclear hormone receptor family NR2 subfamily	Family
A	IPR001723	Nuclear hormone receptor	Family
A	IPR049635	Hepatocyte nuclear factor 4, ligand-binding domain	Domain
A	IPR049636	Hepatocyte nuclear factor 4-like, DNA-binding domain	Domain
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: P41235	maturity-onset diabetes of the young ulcerative colitis Fanconi renotubular syndrome 4 with maturity-onset diabetes of the young type 2 diabetes mellitus maturity-onset diabetes of the young type 1 renal cysts and diabetes syndrome hyperinsulinism due to HNF4A deficiency hyperinsulinemic hypoglycemia metabolic syndrome X acquired metabolic disease Diabetes Mellitus, Non-Insulin-Dependent hyperinsulinism large cell medulloblastoma pancreatic ductal adenocarcinoma cancer maturity-onset diabetes of the young ulcerative colitis Fanconi renotubular syndrome 4 with maturity-onset diabetes of the young type 2 diabetes mellitus maturity-onset diabetes of the young type 1 renal cysts and diabetes syndrome hyperinsulinism due to HNF4A deficiency hyperinsulinemic hypoglycemia metabolic syndrome X acquired metabolic disease Diabetes Mellitus, Non-Insulin-Dependent hyperinsulinism large cell medulloblastoma pancreatic ductal adenocarcinoma cancer gallbladder disease intellectual disability liver disease pancreatic intraductal papillary-mucinous neoplasm diabetes mellitus inborn errors of metabolism intestinal disease malignant glioma

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.