1CIT

DNA-BINDING MECHANISM OF THE MONOMERIC ORPHAN NUCLEAR RECEPTOR NGFI-B

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)
C [auth A]	d1cita_	Small proteins	Glucocorticoid receptor-like (DNA-binding domain)	Glucocorticoid receptor-like (DNA-binding domain)	Nuclear receptor	Orphan nuclear receptor NGFI-B DNA-binding domain	Norway rat (Rattus norvegicus ) [TaxId: 10116 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth A]	SCOP2 Family	Nuclear receptor	8026658	4003622	SCOP2 (2022-06-29)
C [auth A]	SCOP2 Superfamily	Glucocorticoid receptor-like (DNA-binding domain)	8039037	3000068	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)
C [auth A]	zf-C4	e1citA1	A: few secondary structure elements	X: Glucocorticoid receptor-like	H: LIM domain-like	T: LIM domain-like	F: zf-C4	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C [auth A]	3.30.50.10	Alpha Beta	2-Layer Sandwich	Erythroid Transcription Factor GATA-1	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth A]	PF00105	Double treble clef zinc finger, C4 type (zf-C4)	Zinc finger, C4 type (two domains)	In nearly all cases, this is the DNA binding domain of a nuclear hormone receptor. The alignment contains two Zinc finger domains that are too dissimilar to be aligned with each other.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B]	DNA (5'-D(CPCPGPAPAPAPAPGPGPTPCPAPTPGPCPG)-3')	-	-	-
B [auth C]	DNA (5'-D(CPGPCPAPTPGPAPCPCPTPTPTPTPCPGPG)-3')	-	-	-
C [auth A]	PROTEIN (ORPHAN NUCLEAR RECEPTOR NGFI-B)	transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding protein binding binding nuclear glucocorticoid receptor binding DNA-binding transcription factor binding sequence-specific DNA binding DNA binding organic cyclic compound binding nucleic acid binding DNA-binding transcription factor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription factor activity transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding nuclear receptor binding protein binding binding nuclear glucocorticoid receptor binding DNA-binding transcription factor binding sequence-specific DNA binding DNA binding organic cyclic compound binding 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 sequence-specific double-stranded DNA binding double-stranded DNA binding DNA-binding transcription activator activity, RNA polymerase II-specific DNA-binding transcription activator activity identical protein binding RNA polymerase II transcription regulatory region sequence-specific DNA binding cis-regulatory region sequence-specific DNA binding transcription cis-regulatory region binding transcription regulatory region nucleic acid binding RNA polymerase II cis-regulatory region sequence-specific DNA binding protein heterodimerization activity protein dimerization activity lipid binding lipopolysaccharide binding carbohydrate derivative binding cation binding transition metal ion binding zinc ion binding ion binding metal ion binding small molecule binding	regulation of biological process cell population proliferation regulation of cellular process regulation of cell population proliferation regulation of type B pancreatic cell proliferation type B pancreatic cell proliferation biological regulation cellular process regulation of epithelial cell proliferation epithelial cell proliferation apoptotic process cell death programmed cell death negative regulation of cellular process regulation of biological process cell population proliferation regulation of cellular process regulation of cell population proliferation regulation of type B pancreatic cell proliferation type B pancreatic cell proliferation biological regulation cellular process regulation of epithelial cell proliferation epithelial cell proliferation apoptotic process cell death programmed cell death negative regulation of cellular process negative regulation of biological process negative regulation of cell cycle cell cycle regulation of cell cycle positive regulation of programmed cell death regulation of apoptotic process positive regulation of biological process regulation of programmed cell death positive regulation of apoptotic process positive regulation of cellular process developmental process multicellular organismal process cell migration involved in sprouting angiogenesis blood vessel morphogenesis tube development endothelial cell migration angiogenesis sprouting angiogenesis vasculature development circulatory system development multicellular organism development anatomical structure morphogenesis tube morphogenesis anatomical structure development anatomical structure formation involved in morphogenesis blood vessel endothelial cell migration cell migration cell motility blood vessel development system development skeletal muscle cell differentiation cellular developmental process skeletal muscle tissue development animal organ development tissue development striated muscle tissue development muscle structure development skeletal muscle organ development cell differentiation muscle tissue development muscle organ development response to fibroblast growth factor cellular response to endogenous stimulus cellular response to growth factor stimulus response to stimulus response to endogenous stimulus response to growth factor cellular response to fibroblast growth factor stimulus response to electrical stimulus response to abiotic stimulus fat cell differentiation positive regulation of DNA-templated transcription 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 regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process primary metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process cellular response to vascular endothelial growth factor stimulus biological process involved in interspecies interaction between organisms detection of external biotic stimulus response to lipid response to other organism detection of lipopolysaccharide response to oxygen-containing compound response to external stimulus detection of molecule of bacterial origin detection of biotic stimulus response to lipopolysaccharide response to biotic stimulus detection of stimulus response to bacterium response to chemical detection of chemical stimulus response to external biotic stimulus response to molecule of bacterial origin cellular response to nitrogen compound cellular response to stimulus response to corticotropin-releasing hormone response to peptide hormone cellular response to peptide hormone stimulus response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus response to hormone cellular response to corticotropin-releasing hormone stimulus cellular response to hormone stimulus cell chemotaxis chemotaxis taxis endothelial cell chemotaxis locomotion cellular localization system process transport signaling regulation of system process cell communication striated muscle contraction multicellular organismal movement localization musculoskeletal movement synaptic signaling secretion by cell signal release establishment of localization in cell regulation of skeletal muscle contraction neurotransmitter secretion involved in regulation of skeletal muscle contraction regulation of multicellular organismal process trans-synaptic signaling neurotransmitter secretion nervous system process secretion neuromuscular process cell-cell signaling export from cell skeletal muscle contraction neurotransmitter transport muscle contraction establishment of localization muscle system process regulation of muscle system process chemical synaptic transmission signal release from synapse regulation of striated muscle contraction regulation of muscle contraction anterograde trans-synaptic signaling regulation of skeletal muscle contraction by neural stimulation via neuromuscular junction cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein-containing complex assembly cellular component organization or biogenesis non-canonical inflammasome complex assembly response to amine response to amphetamine defense response response to stress inflammatory response positive regulation of cell population proliferation endothelial cell proliferation positive regulation of epithelial cell proliferation regulation of endothelial cell proliferation positive regulation of endothelial cell proliferation	membrane-bounded organelle intracellular anatomical structure nuclear membrane membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope cellular anatomical structure organelle nuclear envelope organelle membrane cytoplasm membrane-bounded organelle intracellular anatomical structure nuclear membrane membrane nucleus intracellular membrane-bounded organelle endomembrane system intracellular organelle organelle envelope cellular anatomical structure organelle nuclear envelope organelle membrane cytoplasm cytosol protein-containing complex transcription regulator complex membraneless organelle intracellular membraneless organelle chromatin chromosome mitochondrion presynapse synapse cell junction membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A]	IPR001628	Zinc finger, nuclear hormone receptor-type	Domain
C [auth A]	IPR013088	Zinc finger, NHR/GATA-type	Homologous Superfamily
C [auth A]	IPR003070	Nuclear receptor subfamily 4 group A member 1-3	Family
C [auth A]	IPR003071	Nuclear receptor subfamily 4 group A member 1	Family
C [auth A]	IPR001723	Nuclear hormone receptor	Family
C [auth A]	IPR000536	Nuclear hormone receptor, ligand-binding domain	Domain
C [auth A]	IPR035500	Nuclear hormone receptor-like domain superfamily	Homologous Superfamily

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.