4QK4

Crystal structure of human nuclear receptor sf-1 (nr5a1) bound to pip2 at 2.8 a resolution

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8071634	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_1	e4qk4A1	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_1	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
B	Peroxisome proliferator-activated receptor gamma coactivator 1-alpha	RNA binding binding organic cyclic compound binding lncRNA binding nucleic acid binding sequence-specific DNA binding DNA binding ubiquitin protein ligase binding protein binding ubiquitin-like protein ligase binding enzyme binding transcription coactivator activity transcription regulator activity transcription coregulator activity RNA binding binding organic cyclic compound binding lncRNA binding nucleic acid binding sequence-specific DNA binding DNA binding ubiquitin protein ligase binding protein binding ubiquitin-like protein ligase binding enzyme binding transcription coactivator activity transcription regulator activity transcription coregulator activity nuclear receptor coactivator activity protein-macromolecule adaptor activity molecular adaptor activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding DNA-binding transcription factor binding chromatin binding chromatin DNA binding nuclear receptor binding	response to stimulus response to activity response to muscle activity regulation of cellular process oxoacid metabolic process regulation of lipid metabolic process positive regulation of biological process positive regulation of cellular metabolic process organic acid metabolic process regulation of primary metabolic process regulation of fatty acid oxidation positive regulation of metabolic process fatty acid oxidation cellular ketone metabolic process response to stimulus response to activity response to muscle activity regulation of cellular process oxoacid metabolic process regulation of lipid metabolic process positive regulation of biological process positive regulation of cellular metabolic process organic acid metabolic process regulation of primary metabolic process regulation of fatty acid oxidation positive regulation of metabolic process fatty acid oxidation cellular ketone metabolic process regulation of small molecule metabolic process positive regulation of lipid metabolic process small molecule metabolic process lipid oxidation positive regulation of cellular process positive regulation of fatty acid metabolic process fatty acid metabolic process regulation of biological process regulation of cellular ketone metabolic process cellular metabolic process biological regulation carboxylic acid metabolic process lipid modification primary metabolic process regulation of cellular metabolic process positive regulation of fatty acid oxidation cellular lipid metabolic process regulation of fatty acid metabolic process metabolic process cellular process monocarboxylic acid metabolic process positive regulation of small molecule metabolic process regulation of metabolic process lipid metabolic process cellular homeostasis chemical homeostasis homeostatic process glucose homeostasis carbohydrate homeostasis intracellular chemical homeostasis intracellular glucose homeostasis regulation of protein stability regulation of biological quality protein stabilization cellular biosynthetic process positive regulation of macromolecule biosynthetic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of biosynthetic 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 macromolecule metabolic process positive regulation of cellular biosynthetic process positive regulation of DNA-binding transcription factor activity RNA metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process positive regulation of molecular function 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 regulation of molecular function regulation of DNA-binding transcription factor activity regulation of DNA-templated transcription mRNA processing mRNA metabolic process RNA processing cellular response to stimulus response to oxidative stress cellular response to chemical stimulus cellular response to stress response to stress response to chemical cellular response to oxidative stress cellular response to chemical stress rhythmic process circadian regulation of gene expression circadian rhythm RNA splicing monosaccharide metabolic process carbohydrate metabolic process small molecule biosynthetic process carbohydrate biosynthetic process hexose metabolic process monosaccharide biosynthetic process gluconeogenesis hexose biosynthetic process glucose metabolic process developmental process fat cell differentiation cellular developmental process brown fat cell differentiation cell differentiation positive regulation of DNA-templated transcription 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 RNA biosynthetic process response to nutrient levels response to starvation multicellular organismal process digestion regulation of carbohydrate metabolic process regulation of glucose metabolic process positive regulation of gluconeogenesis positive regulation of glucose metabolic process regulation of gluconeogenesis positive regulation of carbohydrate metabolic process regulation of carbohydrate biosynthetic process cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis connective tissue development adipose tissue development animal organ development anatomical structure development tissue development regulation of circadian rhythm negative regulation of cell population proliferation cell population proliferation regulation of smooth muscle cell proliferation negative regulation of biological process smooth muscle cell proliferation negative regulation of smooth muscle cell proliferation regulation of cell population proliferation negative regulation of cellular process muscle cell proliferation multicellular organismal-level homeostasis energy homeostasis neuron apoptotic process negative regulation of neuron apoptotic process negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death negative regulation of apoptotic process apoptotic process programmed cell death regulation of neuron apoptotic process adaptive thermogenesis regulation of cold-induced thermogenesis cold-induced thermogenesis temperature homeostasis positive regulation of cold-induced thermogenesis positive regulation of multicellular organismal process regulation of multicellular organismal process DNA-templated transcription initiation transcription initiation at RNA polymerase II promoter organelle organization mitochondrion organization cellular respiration energy derivation by oxidation of organic compounds respiratory electron transport chain electron transport chain generation of precursor metabolites and energy response to dietary excess	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol intracellular organelle organelle intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cellular anatomical entity cytosol intracellular organelle organelle intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen nuclear body PML body
A	Steroidogenic factor 1	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 chromatin binding phospholipid binding 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 chromatin binding phospholipid binding lipid 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 nuclear receptor activity 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 enzyme binding	developmental process multicellular organismal process gonad development reproductive system development reproductive process sex differentiation animal organ development developmental process involved in reproduction male gonad development male sex differentiation multicellular organism development development of primary male sexual characteristics development of primary sexual characteristics anatomical structure development reproductive structure development developmental process multicellular organismal process gonad development reproductive system development reproductive process sex differentiation animal organ development developmental process involved in reproduction male gonad development male sex differentiation multicellular organism development development of primary male sexual characteristics development of primary sexual characteristics anatomical structure development reproductive structure development system development regulation of developmental process negative regulation of gonad development regulation of gonad development regulation of reproductive process negative regulation of biological process development of primary female sexual characteristics regulation of female gonad development regulation of multicellular organismal process regulation of biological process regulation of multicellular organismal development negative regulation of female gonad development negative regulation of developmental process female gonad development biological regulation female sex differentiation negative regulation of reproductive process negative regulation of multicellular organismal process cellular developmental process epithelial cell differentiation Sertoli cell differentiation cell differentiation epithelium development tissue development cellular process regulation of biosynthetic process regulation of steroid biosynthetic process regulation of lipid metabolic process steroid metabolic process regulation of steroid metabolic process lipid biosynthetic process primary metabolic process regulation of primary metabolic process biosynthetic process metabolic process regulation of lipid biosynthetic process steroid biosynthetic process regulation of metabolic process lipid metabolic process Leydig cell differentiation sex determination primary sex determination maintenance of protein location protein localization cellular localization maintenance of protein location in nucleus protein localization to nucleus maintenance of location maintenance of location in cell localization maintenance of protein location in cell cellular macromolecule localization macromolecule localization protein localization to organelle maintenance of protein localization in organelle male sex determination regulation of cellular process 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 positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular 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 positive regulation of gene expression regulation of macromolecule biosynthetic process macromolecule metabolic process positive regulation of cellular biosynthetic process cellular response to stimulus 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 signal transduction cellular response to hormone stimulus positive regulation of developmental process positive regulation of male gonad development regulation of male gonad development positive regulation of reproductive process positive regulation of gonad development positive regulation of multicellular organismal process regulation of hormone levels regulation of biological quality hormone metabolic process adrenal gland development endocrine system development gland development RNA metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process nucleic acid metabolic process regulation of DNA-templated transcription positive regulation of DNA-templated transcription 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 RNA biosynthetic process rhythmic process ovulation cycle process luteinization multicellular organismal reproductive process ovulation cycle	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 cellular anatomical entity intracellular organelle organelle cytoplasm cytosol membrane-enclosed lumen 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 cellular anatomical entity intracellular organelle organelle cytoplasm cytosol membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen intracellular non-membrane-bounded organelle chromatin chromosome non-membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR000504	RNA recognition motif domain	Domain
B	IPR034605	PGC-1	Family
B	IPR035979	RNA-binding domain superfamily	Homologous Superfamily
B	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
B	IPR034833	PGC-1alpha, RNA recognition motif	Domain
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
A	IPR016355	Nuclear hormone receptor family 5-like	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: Q9UBK2	amyotrophic lateral sclerosis type 2 diabetes mellitus congestive heart failure myocardial infarction Bowen disease of the skin Diabetes Mellitus, Experimental muscular dystrophy, non-human animal lung adenocarcinoma malignant ependymoma maturity-onset diabetes of the young nephrosclerosis obesity disorder atypical teratoid rhabdoid tumor pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pituitary cancer amyotrophic lateral sclerosis type 2 diabetes mellitus congestive heart failure myocardial infarction Bowen disease of the skin Diabetes Mellitus, Experimental muscular dystrophy, non-human animal lung adenocarcinoma malignant ependymoma maturity-onset diabetes of the young nephrosclerosis obesity disorder atypical teratoid rhabdoid tumor pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pituitary cancer schizophrenia ulcerative colitis hyperglycemia large cell medulloblastoma lung cancer malignant glioma medulloblastoma neurodegenerative disease osteosarcoma peripheral nervous system disease psoriasis gastric carcinoma heart failure inborn carbohydrate metabolic disorder malignant colon neoplasm malignant mesothelioma myopathy non-small cell lung carcinoma astrocytic tumor pancreatic intraductal papillary-mucinous neoplasm peripheral neuropathy pulmonary emphysema glioblastoma interstitial lung disease
A	Pharos: Q13285	46,XY complete gonadal dysgenesis primary ovarian failure premature ovarian failure 7 46 XX gonadal dysgenesis 46,XY sex reversal 3 spermatogenic failure 8 46,XY partial gonadal dysgenesis endometriosis ovarian cancer gonadal dysgenesis male infertility 46,XX sex reversal 4 46,XY disorder of sex development hypospadias male infertility with azoospermia or oligozoospermia due to single gene mutation 46,XY complete gonadal dysgenesis primary ovarian failure premature ovarian failure 7 46 XX gonadal dysgenesis 46,XY sex reversal 3 spermatogenic failure 8 46,XY partial gonadal dysgenesis endometriosis ovarian cancer gonadal dysgenesis male infertility 46,XX sex reversal 4 46,XY disorder of sex development hypospadias male infertility with azoospermia or oligozoospermia due to single gene mutation Malignant neoplasm of ovary premature menopause psoriasis 46,XX testicular disorder of sex development azoospermia intellectual disability 46,XX ovotesticular disorder of sex development adrenocortical insufficiency ovarian neoplasm X-linked adrenal hypoplasia congenita atrial fibrillation

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.