1M7W

HNF4a ligand binding domain with bound fatty acid

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1m7wa_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Hepatocyte nuclear factor 4-alpha	black rat (Rattus rattus ) [TaxId: 10117 ],	SCOPe (2.08)
B	d1m7wb_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Hepatocyte nuclear factor 4-alpha	black rat (Rattus rattus ) [TaxId: 10117 ],	SCOPe (2.08)
C	d1m7wc_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Hepatocyte nuclear factor 4-alpha	black rat (Rattus rattus ) [TaxId: 10117 ],	SCOPe (2.08)
D	d1m7wd_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Hepatocyte nuclear factor 4-alpha	black rat (Rattus rattus ) [TaxId: 10117 ],	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	8020365	4001384	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Nuclear receptor ligand-binding domain	8032745	3001442	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8032745	3001442	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8032745	3001442	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8032745	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	e1m7wA1	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)
B	Hormone_recep	e1m7wB1	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)
C	Hormone_recep	e1m7wC1	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)
D	Hormone_recep	e1m7wD1	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)
B	1.10.565.10	Mainly Alpha	Orthogonal Bundle	Retinoid X Receptor	Retinoid X Receptor	CATH (4.3.0)
C	1.10.565.10	Mainly Alpha	Orthogonal Bundle	Retinoid X Receptor	Retinoid X Receptor	CATH (4.3.0)
D	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, B, C, D	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 amide binding long-chain fatty acyl-CoA binding adenyl ribonucleotide binding fatty-acyl-CoA binding nucleotide binding 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 amide binding long-chain fatty acyl-CoA binding adenyl ribonucleotide binding fatty-acyl-CoA binding nucleotide binding acyl-CoA binding purine ribonucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding lipid binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding fatty acid derivative binding small molecule binding sulfur compound binding fatty acid binding organic acid binding stearic acid binding long-chain fatty acid binding carboxylic acid binding monocarboxylic acid binding transcription factor binding transcription coregulator binding protein binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity cis-regulatory region sequence-specific DNA binding protein-containing complex binding 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 transcription corepressor binding protein domain specific binding signaling receptor 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 RNA polymerase II cis-regulatory region sequence-specific DNA binding chromatin binding icosanoid binding arachidonic acid binding icosatetraenoic acid binding identical protein binding protein homodimerization activity protein dimerization activity cation binding transition metal ion binding zinc ion binding metal ion binding	response to stimulus response to chemical response to xenobiotic stimulus protein localization negative regulation of protein transport regulation of localization establishment of protein localization negative regulation of nucleocytoplasmic transport nitrogen compound transport regulation of cellular process nucleocytoplasmic transport nuclear transport negative regulation of biological process negative regulation of intracellular protein transport response to stimulus response to chemical response to xenobiotic stimulus protein localization negative regulation of protein transport regulation of localization establishment of protein localization negative regulation of nucleocytoplasmic transport nitrogen compound transport regulation of cellular process nucleocytoplasmic transport nuclear transport negative regulation of biological process negative regulation of intracellular protein transport negative regulation of transport localization import into nucleus cellular macromolecule localization establishment of localization in cell regulation of intracellular transport regulation of biological process organic substance transport negative regulation of establishment of protein localization intracellular transport regulation of nucleocytoplasmic transport protein localization to nucleus establishment of localization establishment of protein localization to organelle regulation of intracellular protein transport intracellular protein transport cellular localization regulation of protein localization transport regulation of protein localization to nucleus negative regulation of protein import into nucleus regulation of protein import into nucleus protein import into nucleus negative regulation of cellular process negative regulation of protein localization negative regulation of intracellular transport regulation of transport biological regulation regulation of establishment of protein localization regulation of protein transport negative regulation of protein localization to nucleus protein transport regulation of cellular localization macromolecule localization protein localization to organelle cellular process multicellular organismal process regulation of body fluid levels wound healing hemostasis blood coagulation response to stress coagulation regulation of biological quality response to wounding phospholipid homeostasis chemical homeostasis homeostatic process lipid homeostasis cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process organic substance metabolic process positive regulation of biosynthetic process organic substance biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of biosynthetic process cellular metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression regulation of macromolecule biosynthetic process metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process response to decreased oxygen levels cellular response to stimulus cellular response to oxygen levels cellular response to hypoxia cellular response to decreased oxygen levels cellular response to chemical stimulus cellular response to stress response to hypoxia response to oxygen levels response to abiotic stimulus triglyceride homeostasis acylglycerol homeostasis oxoacid metabolic process regulation of lipid metabolic process organic acid biosynthetic process organic acid metabolic process carboxylic acid biosynthetic process regulation of primary metabolic process cellular ketone metabolic process regulation of small molecule metabolic process positive regulation of lipid metabolic process small molecule metabolic process regulation of cellular ketone metabolic process primary metabolic process cellular lipid metabolic process regulation of fatty acid metabolic process regulation of fatty acid biosynthetic process monocarboxylic acid metabolic process lipid biosynthetic process positive regulation of fatty acid biosynthetic process positive regulation of fatty acid metabolic process fatty acid metabolic process monocarboxylic acid biosynthetic process small molecule biosynthetic process carboxylic acid metabolic process fatty acid biosynthetic process positive regulation of lipid biosynthetic process regulation of lipid biosynthetic process positive regulation of small molecule metabolic process lipid metabolic process regulation of growth regulation of cellular component organization growth negative regulation of cell growth regulation of cell growth cell growth cellular component organization negative regulation of growth cellular component organization or biogenesis plasma membrane bounded cell projection organization cell projection organization regulation of cell projection organization regulation of cell projection assembly plasma membrane bounded cell projection assembly regulation of cellular component biogenesis microvillus organization cellular component biogenesis regulation of microvillus organization regulation of plasma membrane bounded cell projection assembly regulation of microvillus assembly cellular component assembly microvillus assembly cell projection assembly regulation of plasma membrane bounded cell projection organization ribose phosphate metabolic process nucleoside bisphosphate metabolic process purine nucleoside bisphosphate metabolic process ribonucleoside bisphosphate metabolic process carbohydrate derivative metabolic process nucleobase-containing compound metabolic process purine nucleotide metabolic process acyl-CoA metabolic process ribonucleotide metabolic process nucleobase-containing small molecule metabolic process phosphate-containing compound metabolic process sulfur compound metabolic process amide metabolic process thioester metabolic process phosphorus metabolic process nucleoside phosphate metabolic process organonitrogen compound metabolic process nucleotide metabolic process purine-containing compound metabolic process organic cyclic compound metabolic process organophosphate metabolic process purine ribonucleotide metabolic process 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 cell communication regulation of peptide hormone secretion regulation of hormone levels establishment of protein localization to extracellular region protein secretion regulation of protein secretion regulation of secretion regulation of hormone secretion regulation of peptide secretion 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 peptide transport cell-cell signaling export from cell peptide transport regulation of insulin secretion peptide hormone secretion hormone transport regulation of cell communication insulin secretion response to organic substance response to ketone response to lipid response to endogenous stimulus response to glucocorticoid response to oxygen-containing compound response to corticosteroid response to hormone response to steroid hormone response to dexamethasone response to organic cyclic compound RNA 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 nucleobase-containing compound biosynthetic process nucleic acid metabolic process organic cyclic compound biosynthetic process regulation of DNA-templated transcription epithelium development cellular developmental process gland development animal organ development tissue development liver development epithelial cell differentiation cell differentiation hepaticobiliary system development hepatocyte differentiation system development negative regulation of locomotion regulation of cell motility regulation of locomotion regulation of cell migration negative regulation of cell motility cell migration cell motility negative regulation of cell migration locomotion signal transduction involved in regulation of gene expression signal transduction response to organonitrogen compound response to organophosphorus response to nitrogen compound response to purine-containing compound response to cAMP establishment of tissue polarity response to nutrient levels transcription by RNA polymerase II regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of DNA-templated transcription positive regulation of RNA biosynthetic process glucose homeostasis carbohydrate homeostasis negative regulation of cellular metabolic process negative regulation of RNA biosynthetic process negative regulation of nucleobase-containing compound metabolic process negative regulation of DNA-templated transcription negative regulation of metabolic process negative regulation of cellular biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process negative regulation of macromolecule metabolic process negative regulation of biosynthetic process monosaccharide metabolic process gluconeogenesis regulation of carbohydrate metabolic process regulation of glucose metabolic process positive regulation of gluconeogenesis carbohydrate metabolic process carbohydrate biosynthetic process hexose metabolic process monosaccharide biosynthetic process hexose biosynthetic process positive regulation of glucose metabolic process regulation of gluconeogenesis positive regulation of carbohydrate metabolic process regulation of carbohydrate biosynthetic process glucose metabolic process rhythmic process circadian rhythm regulation of circadian rhythm ornithine metabolic process amino acid metabolic process alpha-amino acid metabolic process non-proteinogenic amino acid metabolic process sterol homeostasis cholesterol homeostasis response to hexose response to monosaccharide response to carbohydrate response to glucose response to trichostatin A response to antibiotic regulation of signal transduction regulation of phosphate metabolic process peptidyl-amino acid modification negative regulation of protein modification process regulation of receptor signaling pathway via JAK-STAT protein modification process negative regulation of protein metabolic process tyrosine phosphorylation of STAT protein negative regulation of receptor signaling pathway via JAK-STAT protein phosphorylation phosphorylation regulation of protein metabolic process regulation of response to stimulus negative regulation of protein phosphorylation macromolecule modification regulation of phosphorus metabolic process regulation of receptor signaling pathway via STAT cell surface receptor signaling pathway via STAT regulation of protein modification process regulation of protein phosphorylation negative regulation of signaling negative regulation of phosphate metabolic process peptidyl-tyrosine modification negative regulation of cell communication protein metabolic process negative regulation of peptidyl-tyrosine phosphorylation cell surface receptor signaling pathway regulation of tyrosine phosphorylation of STAT protein negative regulation of response to stimulus regulation of peptidyl-tyrosine phosphorylation negative regulation of signal transduction negative regulation of tyrosine phosphorylation of STAT protein negative regulation of phosphorus metabolic process regulation of phosphorylation negative regulation of phosphorylation peptidyl-tyrosine phosphorylation negative regulation of receptor signaling pathway via STAT cell surface receptor signaling pathway via JAK-STAT cellular response to xenobiotic stimulus xenobiotic metabolic process negative regulation of cell population proliferation cell population proliferation regulation of cell population proliferation reproductive process sex differentiation developmental process involved in reproduction biological process involved in interspecies interaction between organisms response to other organism response to external stimulus response to lipopolysaccharide response to biotic stimulus response to bacterium response to external biotic stimulus response to molecule of bacterial origin cell junction organization cell-cell junction organization negative regulation of cell cycle negative regulation of mitotic cell cycle mitotic cell cycle regulation of mitotic cell cycle cell cycle regulation of cell cycle	intracellular anatomical structure cytoplasm cellular anatomical entity membrane-bounded organelle intracellular organelle organelle nucleus intracellular membrane-bounded organelle

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	IPR013088	Zinc finger, NHR/GATA-type	Homologous Superfamily
A, B, C, D	IPR001723	Nuclear hormone receptor	Family
A, B, C, D	IPR049635	Hepatocyte nuclear factor 4, ligand-binding domain	Domain
A, B, C, D	IPR049636	Hepatocyte nuclear factor 4-like, DNA-binding domain	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

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.