4GVP | pdb_00004gvp

Crystal Structure of the Response Regulator Protein VraR from Staphylococcus aureus

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)
D	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8076821	3001179	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8076821	3001179	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8076821	3001179	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	C-terminal effector domain of the bipartite response regulators	8076821	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)
D	GerE	e4gvpD1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, LuxR-like	F: GerE	ECOD (1.6)
D	Response_reg	e4gvpD2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: Response_reg	ECOD (1.6)
C	GerE	e4gvpC1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, LuxR-like	F: GerE	ECOD (1.6)
C	Response_reg	e4gvpC2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: Response_reg	ECOD (1.6)
B	GerE	e4gvpB1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, LuxR-like	F: GerE	ECOD (1.6)
B	Response_reg	e4gvpB2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: Response_reg	ECOD (1.6)
A	GerE	e4gvpA5	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, LuxR-like	F: GerE	ECOD (1.6)
A	Response_reg	e4gvpA6	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: Response_reg	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)
C	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)
B	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)
A	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF00072	Response regulator receiver domain (Response_reg)	Response regulator receiver domain	This domain receives the signal from the sensor partner in bacterial two-component systems. It is usually found N-terminal to a DNA binding effector domain.	Domain
A, B, C, D	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
A, B, C, D	Response regulator protein vraR	DNA binding binding nucleic acid binding	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 response to chemical response to antibiotic	cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR039420	Transcriptional regulatory protein WalR-like	Family
A, B, C, D	IPR011006	CheY-like superfamily	Homologous Superfamily
A, B, C, D	IPR001789	Signal transduction response regulator, receiver domain	Domain
A, B, C, D	IPR000792	Transcription regulator LuxR, C-terminal	Domain
A, B, C, D	IPR016032	Signal transduction response regulator, C-terminal effector	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.