1ZG1 | pdb_00001zg1

NarL complexed to nirB promoter non-palindromic tail-to-tail DNA site

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)
E [auth A]	d1zg1a1	All alpha proteins	DNA/RNA-binding 3-helical bundle	C-terminal effector domain of the bipartite response regulators	GerE-like (LuxR/UhpA family of transcriptional regulators)	Nitrate/nitrite response regulator (NarL)	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
G [auth E]	d1zg1e1	All alpha proteins	DNA/RNA-binding 3-helical bundle	C-terminal effector domain of the bipartite response regulators	GerE-like (LuxR/UhpA family of transcriptional regulators)	Nitrate/nitrite response regulator (NarL)	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
H [auth F]	d1zg1f1	All alpha proteins	DNA/RNA-binding 3-helical bundle	C-terminal effector domain of the bipartite response regulators	GerE-like (LuxR/UhpA family of transcriptional regulators)	Nitrate/nitrite response regulator (NarL)	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)
F [auth B]	d1zg1b1	All alpha proteins	DNA/RNA-binding 3-helical bundle	C-terminal effector domain of the bipartite response regulators	GerE-like (LuxR/UhpA family of transcriptional regulators)	Nitrate/nitrite response regulator (NarL)	(Escherichia coli ) [TaxId: 562 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E [auth A]	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8036641	3001179	SCOP2B (2022-06-29)
G [auth E]	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8036641	3001179	SCOP2B (2022-06-29)
H [auth F]	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8036641	3001179	SCOP2B (2022-06-29)
F [auth B]	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8036641	3001179	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)
E [auth A]	Phage_CII	e1zg1A1	A: alpha bundles	X: EGF-like	H: YozE-like	T: Ribbon-helix-helix	F: Phage_CII	ECOD (develop294)
G [auth E]	Phage_CII	e1zg1E1	A: alpha bundles	X: EGF-like	H: YozE-like	T: Ribbon-helix-helix	F: Phage_CII	ECOD (develop294)
H [auth F]	Phage_CII	e1zg1F1	A: alpha bundles	X: EGF-like	H: YozE-like	T: Ribbon-helix-helix	F: Phage_CII	ECOD (develop294)
F [auth B]	Phage_CII	e1zg1B1	A: alpha bundles	X: EGF-like	H: YozE-like	T: Ribbon-helix-helix	F: Phage_CII	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E [auth A]	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)
G [auth E]	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)
H [auth F]	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)
F [auth B]	1.10.10.10	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth A], F [auth B], G [auth E], H [auth F]	PF00196	Bacterial regulatory proteins, luxR family (GerE)	Bacterial regulatory proteins, luxR family		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth A], F [auth B], G [auth E], H [auth F]	Nitrate/nitrite response regulator protein narL	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding DNA binding nucleic acid binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding double-stranded DNA binding transcription regulatory region nucleic acid binding transcription regulator activity DNA-binding transcription factor activity identical protein binding protein binding DNA-binding transcription repressor activity	cellular response to stimulus regulation of biological process phosphorelay signal transduction system regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication cellular process signal transduction RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process cellular response to stimulus regulation of biological process phosphorelay signal transduction system regulation of cellular process response to stimulus signaling biological regulation intracellular signal transduction cell communication cellular process signal transduction RNA metabolic process regulation of primary 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 regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process nitrate assimilation nitrogen cycle metabolic process oxoacid metabolic process small molecule metabolic process organic acid metabolic process nitrate metabolic process reactive nitrogen species metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex protein-DNA complex
B [auth D], C [auth G]	5'-D(CPGPTPAPCPCPCPAPTPTPAPAPGPGPAPGPTPAPCPG)-3'	-	-	-
A [auth C], D [auth H]	5'-D(CPGPTPAPCPTPCPCPTPTPAPAPTPGPGPGPTPAPCPG)-3'	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A], F [auth B], G [auth E], H [auth F]	IPR039420	Transcriptional regulatory protein WalR-like	Family
E [auth A], F [auth B], G [auth E], H [auth F]	IPR011006	CheY-like superfamily	Homologous Superfamily
E [auth A], F [auth B], G [auth E], H [auth F]	IPR001789	Signal transduction response regulator, receiver domain	Domain
E [auth A], F [auth B], G [auth E], H [auth F]	IPR000792	Transcription regulator LuxR, C-terminal	Domain
E [auth A], F [auth B], G [auth E], H [auth F]	IPR016032	Signal transduction response regulator, C-terminal effector	Homologous Superfamily
E [auth A], F [auth B], G [auth E], H [auth F]	IPR036388	Winged helix-like DNA-binding 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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.