4KWA

Crystal structure of a putative transcriptional regulator from Saccharomonospora viridis in complex with choline

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	TetR C-terminal domain-like	8090150	3000086	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Homeodomain-like	8088783	3000001	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Homeodomain-like	8088783	3000001	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	TetR C-terminal domain-like	8090150	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	TetR_N	e4kwaA1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: TetR_N	ECOD (1.6)
A	TetR_C_6	e4kwaA2	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_6	ECOD (1.6)
B	TetR_N	e4kwaB1	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: TetR_N	ECOD (1.6)
B	TetR_C_6	e4kwaB2	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_6	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.10.357.10	Mainly Alpha	Orthogonal Bundle	Tetracycline Repressor	domain 2	CATH (4.3.0)
B	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, B	PF13977	BetI-type transcriptional repressor, C-terminal (TetR_C_6)	BetI-type transcriptional repressor, C-terminal	This family comprises the C-terminal portion of proteins that belong to the TetR family of transcriptional regulators. The C terminus represents the regulatory region, and does not include the DNA binding helix-turn-helix domain. The target proteins ...	This family comprises the C-terminal portion of proteins that belong to the TetR family of transcriptional regulators. The C terminus represents the regulatory region, and does not include the DNA binding helix-turn-helix domain. The target proteins that are repressed are involved in the transcriptional control of multi-drug efflux pumps, pathways for the biosynthesis of antibiotics, response to osmotic stress and toxic chemicals, control of catabolic pathways, differentiation processes, and pathogenicity [1]. One of the target proteins is BetI, an osmoprotectant which controls the choline-glycine betaine pathway in E.coli [2].	Domain
A, B	PF00440	Bacterial regulatory proteins, tetR family (TetR_N)	Bacterial regulatory proteins, tetR family	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	Transcriptional regulator	DNA binding binding organic cyclic compound binding nucleic acid binding	regulation of cellular process cellular biosynthetic process 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 organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of cellular process cellular biosynthetic process 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 organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process cellular 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 regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process cellular process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR001387	Cro/C1-type helix-turn-helix domain	Domain
A, B	IPR001647	DNA-binding HTH domain, TetR-type	Domain
A, B	IPR036271	Tetracyclin repressor-like, C-terminal domain superfamily	Homologous Superfamily
A, B	IPR039538	BetI-type transcriptional repressor, C-terminal	Domain
A, B	IPR009057	Homeobox-like domain superfamily	Homologous Superfamily
A, B	IPR010982	Lambda repressor-like, DNA-binding domain superfamily	Homologous Superfamily

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.