1RKW

CRYSTAL STRUCTURE OF THE MULTIDRUG BINDING TRANSCRIPTIONAL REPRESSOR QACR BOUND TO PENTAMADINE

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)
A [auth B]	d1rkwb1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Homeodomain-like	Tetracyclin repressor-like, N-terminal domain	Multidrug binding protein QacR	(Staphylococcus aureus ) [TaxId: 1280 ],	SCOPe (2.08)
A [auth B]	d1rkwb2	All alpha proteins	Tetracyclin repressor-like, C-terminal domain	Tetracyclin repressor-like, C-terminal domain	Tetracyclin repressor-like, C-terminal domain	Multidrug binding protein QacR	(Staphylococcus aureus ) [TaxId: 1280 ],	SCOPe (2.08)
B [auth D]	d1rkwd1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Homeodomain-like	Tetracyclin repressor-like, N-terminal domain	Multidrug binding protein QacR	(Staphylococcus aureus ) [TaxId: 1280 ],	SCOPe (2.08)
B [auth D]	d1rkwd2	All alpha proteins	Tetracyclin repressor-like, C-terminal domain	Tetracyclin repressor-like, C-terminal domain	Tetracyclin repressor-like, C-terminal domain	Multidrug binding protein QacR	(Staphylococcus aureus ) [TaxId: 1280 ],	SCOPe (2.08)
D [auth E]	d1rkwe1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Homeodomain-like	Tetracyclin repressor-like, N-terminal domain	Multidrug binding protein QacR	(Staphylococcus aureus ) [TaxId: 1280 ],	SCOPe (2.08)
D [auth E]	d1rkwe2	All alpha proteins	Tetracyclin repressor-like, C-terminal domain	Tetracyclin repressor-like, C-terminal domain	Tetracyclin repressor-like, C-terminal domain	Multidrug binding protein QacR	(Staphylococcus aureus ) [TaxId: 1280 ],	SCOPe (2.08)
C [auth A]	d1rkwa1	All alpha proteins	DNA/RNA-binding 3-helical bundle	Homeodomain-like	Tetracyclin repressor-like, N-terminal domain	Multidrug binding protein QacR	(Staphylococcus aureus ) [TaxId: 1280 ],	SCOPe (2.08)
C [auth A]	d1rkwa2	All alpha proteins	Tetracyclin repressor-like, C-terminal domain	Tetracyclin repressor-like, C-terminal domain	Tetracyclin repressor-like, C-terminal domain	Multidrug binding protein QacR	(Staphylococcus aureus ) [TaxId: 1280 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth B]	SCOP2B Superfamily	TetR C-terminal domain-like	8056375	3000086	SCOP2B (2022-06-29)
A [auth B]	SCOP2B Superfamily	Homeodomain-like	8002545	3000001	SCOP2B (2022-06-29)
B [auth D]	SCOP2B Superfamily	TetR C-terminal domain-like	8056375	3000086	SCOP2B (2022-06-29)
B [auth D]	SCOP2B Superfamily	Homeodomain-like	8002545	3000001	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	TetR C-terminal domain-like	8056375	3000086	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	Homeodomain-like	8002545	3000001	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Homeodomain-like	8002545	3000001	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	TetR C-terminal domain-like	8056375	3000086	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)
A [auth B]	TetR_N	e1rkwB1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: TetR_N	ECOD (1.6)
A [auth B]	TetR_C_5	e1rkwB2	A: alpha bundles	X: Tetracyclin repressor-like, C-terminal domain (From Topology)	H: Tetracyclin repressor-like, C-terminal domain (From Topology)	T: Tetracyclin repressor-like, C-terminal domain	F: TetR_C_5	ECOD (1.6)
B [auth D]	TetR_N	e1rkwD1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: TetR_N	ECOD (1.6)
B [auth D]	TetR_C_5	e1rkwD2	A: alpha bundles	X: Tetracyclin repressor-like, C-terminal domain (From Topology)	H: Tetracyclin repressor-like, C-terminal domain (From Topology)	T: Tetracyclin repressor-like, C-terminal domain	F: TetR_C_5	ECOD (1.6)
D [auth E]	TetR_N	e1rkwE1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: TetR_N	ECOD (1.6)
D [auth E]	TetR_C_5	e1rkwE2	A: alpha bundles	X: Tetracyclin repressor-like, C-terminal domain (From Topology)	H: Tetracyclin repressor-like, C-terminal domain (From Topology)	T: Tetracyclin repressor-like, C-terminal domain	F: TetR_C_5	ECOD (1.6)
C [auth A]	TetR_N	e1rkwA1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: TetR_N	ECOD (1.6)
C [auth A]	TetR_C_5	e1rkwA2	A: alpha bundles	X: Tetracyclin repressor-like, C-terminal domain (From Topology)	H: Tetracyclin repressor-like, C-terminal domain (From Topology)	T: Tetracyclin repressor-like, C-terminal domain	F: TetR_C_5	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth B]	1.10.10.60	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Homeodomain-like	CATH (4.3.0)
A [auth B]	1.10.357.10	Mainly Alpha	Orthogonal Bundle	Tetracycline Repressor	domain 2	CATH (4.3.0)
B [auth D]	1.10.10.60	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Homeodomain-like	CATH (4.3.0)
B [auth D]	1.10.357.10	Mainly Alpha	Orthogonal Bundle	Tetracycline Repressor	domain 2	CATH (4.3.0)
D [auth E]	1.10.10.60	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Homeodomain-like	CATH (4.3.0)
D [auth E]	1.10.357.10	Mainly Alpha	Orthogonal Bundle	Tetracycline Repressor	domain 2	CATH (4.3.0)
C [auth A]	1.10.10.60	Mainly Alpha	Orthogonal Bundle	Arc Repressor Mutant, subunit A	Homeodomain-like	CATH (4.3.0)
C [auth A]	1.10.357.10	Mainly Alpha	Orthogonal Bundle	Tetracycline Repressor	domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth B], B [auth D], C [auth A], D [auth E]	PF00440	Bacterial regulatory proteins, tetR family (TetR_N)	Bacterial regulatory proteins, tetR family	-	Domain
A [auth B], B [auth D], C [auth A], D [auth E]	PF08360	QacR-like protein, C-terminal region (TetR_C_5)	QacR-like protein, C-terminal region	This family features the C-terminal region of a number of proteins that bear similarity to the QacR protein (Swiss:P23217), a transcriptional regulator of the TetR family. QacR is able to bind various environmental agents, which include a number of c ...	This family features the C-terminal region of a number of proteins that bear similarity to the QacR protein (Swiss:P23217), a transcriptional regulator of the TetR family. QacR is able to bind various environmental agents, which include a number of cationic lipophilic compounds, and thus regulate the transcription of QacA (Swiss:P23215), a multidrug efflux pump [1]. The C-terminal region contains the multifaceted, expansive drug-binding pocket, which is composed of several separate, but linked, binding sites [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], B [auth D], C [auth A], D [auth E]	Transcriptional regulator qacR	DNA binding binding organic cyclic compound binding nucleic acid binding transcription regulator activity DNA-binding transcription factor activity	regulation of cellular process cellular biosynthetic process negative regulation of biological process RNA metabolic process negative regulation of cellular 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 cellular process cellular biosynthetic process negative regulation of biological process RNA metabolic process negative regulation of cellular 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 cellular metabolic process negative regulation of metabolic process biological regulation primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process negative regulation of cellular biosynthetic process regulation of cellular biosynthetic 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	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth B], B [auth D], C [auth A], D [auth E]	IPR023772	DNA-binding HTH domain, TetR-type, conserved site	Conserved Site
A [auth B], B [auth D], C [auth A], D [auth E]	IPR009057	Homedomain-like superfamily	Homologous Superfamily
A [auth B], B [auth D], C [auth A], D [auth E]	IPR050624	HTH-type Transcriptional Regulator	Family
A [auth B], B [auth D], C [auth A], D [auth E]	IPR001647	DNA-binding HTH domain, TetR-type	Domain
A [auth B], B [auth D], C [auth A], D [auth E]	IPR036271	Tetracyclin repressor-like, C-terminal domain superfamily	Homologous Superfamily
A [auth B], B [auth D], C [auth A], D [auth E]	IPR013571	Transcription regulator QacR, C-terminal	Domain

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.