1Z9C | pdb_00001z9c

Crystal structure of OhrR bound to the ohrA promoter: Structure of MarR family protein with operator DNA

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)
L [auth F]	d1z9cf_	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	MarR-like transcriptional regulators	Organic hydroperoxide resistance transcriptional regulator OhrR	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
K [auth E]	d1z9ce_	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	MarR-like transcriptional regulators	Organic hydroperoxide resistance transcriptional regulator OhrR	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
J [auth D]	d1z9cd_	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	MarR-like transcriptional regulators	Organic hydroperoxide resistance transcriptional regulator OhrR	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
I [auth C]	d1z9cc_	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	MarR-like transcriptional regulators	Organic hydroperoxide resistance transcriptional regulator OhrR	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
H [auth B]	d1z9cb_	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	MarR-like transcriptional regulators	Organic hydroperoxide resistance transcriptional regulator OhrR	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)
G [auth A]	d1z9ca_	All alpha proteins	DNA/RNA-binding 3-helical bundle	'Winged helix' DNA-binding domain	MarR-like transcriptional regulators	Organic hydroperoxide resistance transcriptional regulator OhrR	(Bacillus subtilis ) [TaxId: 1423 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L [auth F]	SCOP2B Superfamily	Winged helix DNA-binding domain	8054318	3000034	SCOP2B (2022-06-29)
K [auth E]	SCOP2B Superfamily	Winged helix DNA-binding domain	8054318	3000034	SCOP2B (2022-06-29)
J [auth D]	SCOP2B Superfamily	Winged helix DNA-binding domain	8054318	3000034	SCOP2B (2022-06-29)
I [auth C]	SCOP2B Superfamily	Winged helix DNA-binding domain	8054318	3000034	SCOP2B (2022-06-29)
H [auth B]	SCOP2B Superfamily	Winged helix DNA-binding domain	8054318	3000034	SCOP2B (2022-06-29)
G [auth A]	SCOP2B Superfamily	Winged helix DNA-binding domain	8054318	3000034	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)
L [auth F]	MarR	e1z9cF1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: MarR	ECOD (1.6)
K [auth E]	MarR	e1z9cE1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: MarR	ECOD (1.6)
J [auth D]	MarR	e1z9cD1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: MarR	ECOD (1.6)
I [auth C]	MarR	e1z9cC1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: MarR	ECOD (1.6)
H [auth B]	MarR	e1z9cB1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: MarR	ECOD (1.6)
G [auth A]	MarR	e1z9cA1	A: alpha arrays	X: HTH	H: HTH	T: winged	F: MarR	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L [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)
K [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)
J [auth D]	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)
I [auth C]	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 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)
G [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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	PF01047	MarR family (MarR)	MarR family	The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is t ...	The Mar proteins are involved in the multiple antibiotic resistance, a non-specific resistance system. The expression of the mar operon is controlled by a repressor, MarR. A large number of compounds induce transcription of the mar operon. This is thought to be due to the compound binding to MarR, and the resulting complex stops MarR binding to the DNA. With the MarR repression lost, transcription of the operon proceeds [1]. The structure of MarR is known [2] and shows MarR as a dimer with each subunit containing a winged-helix DNA binding motif.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth G], C [auth I], E [auth K]	DNA (29-MER)	-	-	-
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	Organic hydroperoxide resistance transcriptional regulator	identical protein binding protein binding binding protein homodimerization activity protein dimerization activity DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription repressor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription repressor activity DNA-binding transcription factor activity DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding identical protein binding protein binding binding protein homodimerization activity protein dimerization activity DNA-binding transcription factor activity, RNA polymerase II-specific DNA-binding transcription repressor activity, RNA polymerase II-specific transcription regulator activity DNA-binding transcription repressor activity DNA-binding transcription factor 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	regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of cellular process negative regulation of biological process RNA metabolic process regulation of primary metabolic process negative regulation of RNA biosynthetic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process negative regulation of DNA-templated transcription regulation of biological process negative regulation of metabolic process biological regulation 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 negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process negative regulation of RNA metabolic process response to stimulus response to stress transcription by RNA polymerase II regulation of transcription by RNA polymerase II negative regulation of transcription by RNA polymerase II response to hydrogen peroxide response to oxidative stress response to chemical response to oxygen-containing compound response to reactive oxygen species	cellular anatomical structure intracellular anatomical structure cytoplasm
B [auth H], D [auth J], F [auth L]	DNA (29-MER)	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR036388	Winged helix-like DNA-binding domain superfamily	Homologous Superfamily
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR036390	Winged helix DNA-binding domain superfamily	Homologous Superfamily
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR000835	MarR-type HTH domain	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR055166	Transcriptional regulator SarA/SarZ/Rot-like, helix-turn-helix domain	Domain
G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], G [auth A], H [auth B], I [auth C], J [auth D], K [auth E], L [auth F]	IPR039422	Transcription regulators MarR/SlyA-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.