7YFK | pdb_00007yfk

The structure of human pregnane X receptor in complex with an SRC-1 coactivator peptide and a limonoid compound, nomilin

External Resource: Annotation

Domain Annotation: SCOP2 Classification
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	8036943	3001442	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Nuclear receptor ligand-binding domain	8036943	3001442	SCOP2B (2022-06-29)

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	Nuclear receptor subfamily 1 group I member 2,Nuclear receptor coactivator 1	protein-lysine-acetyltransferase activity catalytic activity, acting on a protein protein N-acetyltransferase activity N-acetyltransferase activity acyltransferase activity histone H3 acetyltransferase activity transferase activity histone acetyltransferase activity acetyltransferase activity histone H3K56 acetyltransferase activity histone modifying activity acyltransferase activity, transferring groups other than amino-acyl groups catalytic activity N-acyltransferase activity protein-lysine-acetyltransferase activity catalytic activity, acting on a protein protein N-acetyltransferase activity N-acetyltransferase activity acyltransferase activity histone H3 acetyltransferase activity transferase activity histone acetyltransferase activity acetyltransferase activity histone H3K56 acetyltransferase activity histone modifying activity acyltransferase activity, transferring groups other than amino-acyl groups catalytic activity N-acyltransferase activity histone H3K122 acetyltransferase activity histone H3K9 acetyltransferase activity protein-containing complex binding binding histone H3K27 acetyltransferase activity protein binding protein dimerization activity histone H4K12 acetyltransferase activity histone H4 acetyltransferase activity histone H4K8 acetyltransferase activity chromatin binding transcription coactivator activity transcription regulator activity transcription coregulator activity protein-macromolecule adaptor activity molecular adaptor activity histone H3K4 acetyltransferase activity histone H3K14 acetyltransferase activity DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding double-stranded DNA binding nucleic acid binding RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription regulatory region nucleic acid binding histone H3K18 acetyltransferase activity histone H2B acetyltransferase activity histone H2BK12 acetyltransferase activity transcription factor binding nuclear retinoic acid receptor binding RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding nuclear retinoid X receptor binding DNA-binding transcription factor binding histone H2AK9 acetyltransferase activity histone H2A acetyltransferase activity histone H2AK5 acetyltransferase activity histone H4K5 acetyltransferase activity histone H2BK5 acetyltransferase activity histone H4K16 acetyltransferase activity nuclear estrogen receptor binding histone H3K36 acetyltransferase activity histone H3K23 acetyltransferase activity cis-regulatory region sequence-specific DNA binding RNA polymerase II cis-regulatory region sequence-specific DNA binding DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription factor activity 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 DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity	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 placenta development chordate embryonic development embryonic morphogenesis labyrinthine layer development embryo development in utero embryonic development embryonic placenta morphogenesis labyrinthine layer morphogenesis anatomical structure morphogenesis embryonic placenta development embryo development ending in birth or egg hatching embryonic organ development ovulation cycle rhythmic process estrous cycle multicellular organismal reproductive process response to ketone response to lipid response to stimulus response to hormone response to steroid hormone response to chemical response to endogenous stimulus response to progesterone response to oxygen-containing compound regulation of biological process positive regulation of programmed cell death regulation of cellular process regulation of apoptotic process biological regulation positive regulation of biological process regulation of programmed cell death cell death positive regulation of apoptotic process cellular process apoptotic process programmed cell death positive regulation of cellular process cellular response to stimulus intracellular receptor signaling pathway signaling regulation of signal transduction regulation of thyroid hormone receptor signaling pathway hormone-mediated signaling pathway intracellular signal transduction cell communication cellular response to endogenous stimulus regulation of intracellular signal transduction signal transduction cellular response to hormone stimulus regulation of signaling thyroid hormone receptor signaling pathway cellular response to chemical stimulus regulation of response to stimulus regulation of cell communication nuclear receptor-mediated signaling pathway head development brain development nervous system development cerebellum development central nervous system development metencephalon development hindbrain development behavior male mating behavior reproductive behavior mating behavior forebrain development pallium development cerebral cortex development telencephalon development nuclear receptor-mediated steroid hormone signaling pathway cellular response to steroid hormone stimulus steroid hormone receptor signaling pathway estrogen receptor signaling pathway cellular response to lipid peroxisome proliferator activated receptor signaling pathway mRNA transcription by RNA polymerase II RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression mRNA transcription mRNA metabolic process macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process transcription by RNA polymerase II biosynthetic process metabolic process macromolecule metabolic process regulation of body fluid levels secretion transport mammary gland development gland development establishment of localization body fluid secretion localization lactation regulation of biological quality response to Thyroglobulin triiodothyronine cellular response to Thyroglobulin triiodothyronine progesterone receptor signaling pathway cellular response to nitrogen compound response to peptide hormone cellular response to peptide hormone stimulus response to nitrogen compound regulation of cellular response to insulin stimulus cellular response to oxygen-containing compound response to insulin cellular response to insulin stimulus positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process regulation of primary metabolic process positive regulation of metabolic process regulation of RNA metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process regulation of gene expression positive regulation of RNA biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription regulation of metabolic process hippocampus development limbic system development regulation of transcription from RNA polymerase II promoter by galactose carbon catabolite regulation of transcription positive regulation of transcription by galactose cellular response to nutrient levels carbon catabolite regulation of transcription from RNA polymerase II promoter carbon catabolite activation of transcription from RNA polymerase II promoter carbon catabolite activation of transcription response to nutrient levels regulation of transcription by galactose response to nutrient positive regulation of transcription from RNA polymerase II promoter by galactose cellular response to nutrient regulation of developmental process connective tissue development adipose tissue development positive regulation of adipose tissue development tissue development positive regulation of developmental process regulation of adipose tissue development positive regulation of multicellular organismal process regulation of multicellular organismal process hypothalamus development diencephalon development response to retinoic acid cellular developmental process regulation of cell differentiation positive regulation of neuron differentiation neurogenesis neuron differentiation positive regulation of cell differentiation cell differentiation generation of neurons regulation of neuron differentiation positive regulation of female receptivity female mating behavior regulation of female receptivity response to estradiol negative regulation of biological process negative regulation of RNA biosynthetic process negative regulation of cellular 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 positive regulation of gene expression xenobiotic transport steroid metabolic process lipid metabolic process biological process involved in interspecies interaction between organisms response to other organism response to external stimulus cellular response to molecule of bacterial origin response to biotic stimulus cellular response to biotic stimulus response to bacterium response to external biotic stimulus response to molecule of bacterial origin cellular response to xenobiotic stimulus xenobiotic metabolic process response to xenobiotic stimulus catabolic process xenobiotic catabolic process system process epithelial structure maintenance homeostatic process digestive system process intestinal epithelial structure maintenance tissue homeostasis maintenance of gastrointestinal epithelium digestion multicellular organismal-level homeostasis anatomical structure homeostasis negative regulation of transcription by RNA polymerase II	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome RNA polymerase II transcription regulator complex membrane-bounded organelle cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex intracellular organelle organelle membraneless organelle intracellular membraneless organelle chromatin chromosome RNA polymerase II transcription regulator complex membrane-bounded organelle nucleus nuclear protein-containing complex intracellular membrane-bounded organelle cell periphery plasma membrane membrane membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen cytoskeleton intermediate filament cytoskeleton nuclear body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR010011	Nuclear receptor coactivator, DUF1518	Domain
A, B	IPR028819	Nuclear receptor coactivator 1, basic helix-loop-helix	Domain
A, B	IPR009110	Nuclear receptor coactivator, interlocking	Homologous Superfamily
A, B	IPR017426	Nuclear receptor coactivator	Family
A, B	IPR014935	Nuclear receptor coactivator, receptor-binding domain	Domain
A, B	IPR014920	Nuclear receptor coactivator, Ncoa-type, interlocking	Domain
A, B	IPR035965	PAS domain superfamily	Homologous Superfamily
A, B	IPR036638	Helix-loop-helix DNA-binding domain superfamily	Homologous Superfamily
A, B	IPR037077	Nuclear receptor coactivator, Ncoa-type, interlocking domain superfamily	Homologous Superfamily
A, B	IPR056193	Nuclear receptor coactivator 1-3, bHLH domain	Domain
A, B	IPR013767	PAS fold	Domain
A, B	IPR000014	PAS domain	Domain
A, B	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain	Domain
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	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: O75469	breast carcinoma breast cancer Mammary Neoplasms, Experimental prostate cancer endometriosis ovarian cancer psoriasis adenoma diffuse large B-cell lymphoma glioblastoma malignant glioma astrocytic tumor invasive ductal breast carcinoma osteosarcoma atypical teratoid rhabdoid tumor breast carcinoma breast cancer Mammary Neoplasms, Experimental prostate cancer endometriosis ovarian cancer psoriasis adenoma diffuse large B-cell lymphoma glioblastoma malignant glioma astrocytic tumor invasive ductal breast carcinoma osteosarcoma atypical teratoid rhabdoid tumor cancer large cell medulloblastoma myopathy osteosarcoma metabolic syndrome X Barrett esophagus granular cell carcinoma Hepatomegaly adenocarcinoma esophageal cancer female infertility hypophosphatemia diabetes mellitus neonatal jaundice obesity disorder tubular adenocarcinoma malignant pancreatic neoplasm neoplasm of esophagus pancreatic intraductal papillary-mucinous neoplasm ulcerative colitis cribriform carcinoma of breast pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia cholestasis drug-induced liver injury pancreatic intraductal papillary-mucinous carcinoma cribriform carcinoma esophageal adenocarcinoma fatty liver disease

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.