1PK5 | pdb_00001pk5

Crystal structure of the orphan nuclear receptor LRH-1

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d1pk5b_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Orphan nuclear receptor NR5a2 (LRH-1)	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d1pk5a_	All alpha proteins	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Nuclear receptor ligand-binding domain	Orphan nuclear receptor NR5a2 (LRH-1)	house mouse (Mus musculus ) [TaxId: 10090 ],	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	8034734	3001442	SCOP2B (2022-06-29)
A	SCOP2 Family	Nuclear receptor ligand-binding domain	8022354	4001384	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Nuclear receptor ligand-binding domain	8034734	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	Hormone_recep_1	e1pk5B1	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)
A	Hormone_recep_1	e1pk5A1	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)
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	Orphan nuclear receptor NR5A2	binding phospholipid binding lipid binding transcription factor binding transcription coregulator binding protein binding DNA binding nucleic acid binding nuclear receptor activity DNA-binding transcription factor activity, RNA polymerase II-specific molecular transducer activity transcription regulator activity DNA-binding transcription factor activity signaling receptor activity binding phospholipid binding lipid binding transcription factor binding transcription coregulator binding protein binding DNA binding nucleic acid binding nuclear receptor activity DNA-binding transcription factor activity, RNA polymerase II-specific molecular transducer activity transcription regulator activity DNA-binding transcription factor activity signaling receptor activity ligand-modulated transcription factor activity DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity sequence-specific DNA binding double-stranded DNA 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 chromatin binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	developmental process multicellular organism development multicellular organismal process skeletal system development connective tissue development anatomical structure development animal organ development tissue development cartilage development system development embryonic cleavage cellular process cell division embryo development developmental process multicellular organism development multicellular organismal process skeletal system development connective tissue development anatomical structure development animal organ development tissue development cartilage development system development embryonic cleavage cellular process cell division embryo development regulation of cellular process positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process zygotic genome activation positive regulation of biosynthetic process positive regulation of macromolecule metabolic process maternal-to-zygotic transition of gene expression positive regulation of cellular process regulation of biosynthetic process regulation of biological process biological regulation regulation of macromolecule metabolic process gene expression macromolecule 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 spermatogenesis sexual reproduction reproductive process multicellular organismal reproductive process developmental process involved in reproduction male gamete generation gamete generation regulation of steroid biosynthetic process positive regulation of steroid hormone biosynthetic process regulation of hormone biosynthetic process regulation of hormone metabolic process steroid metabolic process regulation of lipid metabolic process lipid biosynthetic process regulation of primary metabolic process positive regulation of lipid metabolic process regulation of glucocorticoid metabolic process regulation of biological quality regulation of glucocorticoid biosynthetic process steroid biosynthetic process hormone biosynthetic process steroid hormone biosynthetic process regulation of steroid hormone biosynthetic process positive regulation of hormone metabolic process regulation of hormone levels regulation of steroid metabolic process primary metabolic process positive regulation of glucocorticoid biosynthetic process hormone metabolic process glucocorticoid metabolic process glucocorticoid biosynthetic process positive regulation of steroid biosynthetic process positive regulation of lipid biosynthetic process positive regulation of steroid metabolic process positive regulation of hormone biosynthetic process regulation of lipid biosynthetic process lipid metabolic process anatomical structure morphogenesis pancreas morphogenesis pancreas development animal organ morphogenesis morula formation anatomical structure formation involved in morphogenesis immune system development regulation of T cell anergy lymphocyte anergy regulation of lymphocyte anergy positive regulation of lymphocyte anergy positive regulation of T cell tolerance induction positive regulation of T cell anergy regulation of immune system process regulation of multicellular organismal process regulation of T cell tolerance induction positive regulation of immune system process T cell anergy T cell tolerance induction immune system process positive regulation of multicellular organismal process regulation of tolerance induction positive regulation of tolerance induction tolerance induction digestive system development gland development exocrine pancreas development exocrine system development RNA metabolic process nucleobase-containing compound 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 regulation of DNA-templated transcription positive regulation of viral genome replication positive regulation of viral process viral life cycle regulation of viral life cycle regulation of viral process viral genome replication viral process regulation of viral genome replication cellular developmental process chordate embryonic development inner cell mass cell differentiation in utero embryonic development blastocyst formation embryo development ending in birth or egg hatching cell differentiation blastocyst development somatic stem cell population maintenance maintenance of cell number stem cell population maintenance sex differentiation cell development epithelial cell differentiation Sertoli cell differentiation male gonad development male sex differentiation development of primary male sexual characteristics development of primary sexual characteristics reproductive structure development epithelium development gonad development reproductive system development Sertoli cell development epithelial cell development positive regulation of cell population proliferation regulation of leukocyte activation regulation of cell activation positive regulation of cell activation T cell activation lymphocyte proliferation positive regulation of leukocyte activation regulation of leukocyte proliferation cell population proliferation positive regulation of T cell activation positive regulation of lymphocyte proliferation positive regulation of T cell proliferation regulation of cell population proliferation mononuclear cell proliferation regulation of leukocyte cell-cell adhesion positive regulation of leukocyte proliferation positive regulation of leukocyte cell-cell adhesion lymphocyte activation leukocyte proliferation leukocyte cell-cell adhesion leukocyte activation positive regulation of cell-cell adhesion positive regulation of lymphocyte activation cell adhesion cell-cell adhesion positive regulation of mononuclear cell proliferation regulation of cell-cell adhesion T cell proliferation regulation of lymphocyte proliferation positive regulation of cell adhesion regulation of cell adhesion cell activation regulation of T cell activation regulation of T cell proliferation regulation of mononuclear cell proliferation regulation of lymphocyte activation positive regulation of DNA-templated transcription transcription by RNA polymerase II regulation of transcription by RNA polymerase II positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process ovulation cycle process developmental growth development of primary female sexual characteristics ovulation cycle ovarian follicle development rhythmic process female gonad development growth female sex differentiation primary ovarian follicle growth neurogenesis nervous system development oxoacid metabolic process carboxylic acid metabolic process organic acid metabolic process bile acid metabolic process small molecule metabolic process monocarboxylic acid metabolic process regulation of defense response response to stimulus regulation of response to external stimulus negative regulation of inflammatory response defense response negative regulation of response to stimulus negative regulation of biological process response to external stimulus regulation of inflammatory response regulation of response to stimulus response to stress negative regulation of response to external stimulus regulation of response to stress negative regulation of defense response inflammatory response sterol homeostasis chemical homeostasis homeostatic process cholesterol homeostasis lipid homeostasis positive regulation of tendon cell differentiation regulation of developmental process tendon formation regulation of cell differentiation tendon cell differentiation positive regulation of developmental process positive regulation of cell differentiation regulation of tendon cell differentiation tendon development acinar cell differentiation glandular epithelial cell differentiation columnar/cuboidal epithelial cell differentiation positive regulation of stem cell differentiation stem cell differentiation regulation of stem cell differentiation cellular response to stimulus signaling intracellular signal transduction cell communication calcium-mediated signaling intracellular signaling cassette signal transduction calcineurin-mediated signaling regulation of cartilage development regulation of chondrocyte differentiation negative regulation of cartilage development negative regulation of chondrocyte differentiation negative regulation of cellular process negative regulation of cell differentiation regulation of multicellular organismal development negative regulation of developmental process chondrocyte differentiation negative regulation of multicellular organismal process response to peptide response to chemical response to cytokine response to leukemia inhibitory factor cellular response to cytokine stimulus cellular response to leukemia inhibitory factor cellular component organization chromatin organization chromatin remodeling cellular component organization or biogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromosome RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex cellular anatomical structure intracellular anatomical structure cytoplasm cytosol intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromosome RNA polymerase II transcription regulator complex membrane-bounded organelle protein-containing complex nucleus nuclear protein-containing complex transcription regulator complex intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001628	Zinc finger, nuclear hormone receptor-type	Domain
A, B	IPR013088	Zinc finger, NHR/GATA-type	Homologous Superfamily
A, B	IPR001723	Nuclear hormone receptor	Family
A, B	IPR000536	Nuclear hormone receptor, ligand-binding domain	Domain
A, B	IPR035500	Nuclear hormone receptor-like domain superfamily	Homologous Superfamily
A, B	IPR016355	Nuclear hormone receptor family 5-like	Family

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.