5VXN | pdb_00005vxn

Structure of two RcsB dimers bound to two parallel DNAs.

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F [auth D]	GerE	e5vxnD1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, LuxR-like	F: GerE	ECOD (1.6)
F [auth D]	Response_reg	e5vxnD2	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: CheY-like	F: Response_reg	ECOD (1.6)
E [auth C]	GerE	e5vxnC1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, LuxR-like	F: GerE	ECOD (1.6)
E [auth C]	Response_reg	e5vxnC2	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	e5vxnB2	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, LuxR-like	F: GerE	ECOD (1.6)
B	Response_reg	e5vxnB1	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	e5vxnA1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, LuxR-like	F: GerE	ECOD (1.6)
A	Response_reg	e5vxnA2	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)
F [auth D]	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (utative)
F [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 (utative)
E [auth C]	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (utative)
E [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 (utative)
B	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (utative)
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 (utative)
A	3.40.50.2300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Response regulator	CATH (utative)
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 (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, E [auth C], F [auth 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, E [auth C], F [auth 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
D [auth F], H	DNA (5'-D(GPAPTPTPTPAPGPGPAPAPAPAPAPTPCPTPTPAPGPAPTPA)-3')	-	-	-
C [auth E], G	DNA (5'-D(TPTPTPAPGPGPAPAPAPAPAPTPCPTPTPAPGPA)-3')	-	-	-
A, B, E [auth C], F [auth D]	Transcriptional regulatory protein RcsB	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding nucleic acid binding transcription regulatory region nucleic acid binding transcription regulator activity DNA-binding transcription factor activity DNA-binding transcription activator activity DNA-binding transcription repressor activity identical protein binding protein 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 positive regulation of cellular component organization regulation of cellular component organization cell projection organization regulation of cell projection organization positive regulation of biological process cellular component organization positive regulation of cell projection organization cellular component organization or biogenesis positive regulation of cellular process capsule organization regulation of capsule organization external encapsulating structure organization response to stimulus response to chemical response to antibiotic regulation of bacterial-type flagellum-dependent cell motility regulation of cell motility archaeal or bacterial-type flagellum-dependent cell motility cilium or flagellum-dependent cell motility regulation of locomotion bacterial-type flagellum-dependent cell motility cell motility locomotion cell aggregation biofilm formation biological process involved in intraspecies interaction between organisms single-species biofilm formation on inanimate substrate single-species biofilm formation single-species submerged biofilm formation aggregation of unicellular organisms submerged biofilm formation cellular response to stimulus phosphorelay signal transduction system signaling intracellular signal transduction cell communication signal transduction regulation of carbohydrate catabolic process carbohydrate metabolic process catabolic process carbohydrate catabolic process regulation of catabolic process regulation of carbohydrate metabolic process positive regulation of DNA-templated transcription positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of RNA metabolic process positive regulation of RNA biosynthetic process cellular response to chemical stress response to acidic pH cellular stress response to acidic pH cellular response to environmental stimulus cellular response to chemical stimulus cellular response to stress response to pH response to stress cellular response to pH response to abiotic stimulus cellular response to acidic pH cellular response to abiotic stimulus	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex transcription regulator complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, E [auth C], F [auth D]	IPR058245	NreC/VraR/RcsB-like, phosphoacceptor receiver domain	Domain
A, B, E [auth C], F [auth D]	IPR039420	Transcriptional regulatory protein WalR-like	Family
A, B, E [auth C], F [auth D]	IPR011006	CheY-like superfamily	Homologous Superfamily
A, B, E [auth C], F [auth D]	IPR000792	Transcription regulator LuxR, C-terminal	Domain
A, B, E [auth C], F [auth D]	IPR030864	Transcriptional regulatory protein RcsB	Family
A, B, E [auth C], F [auth D]	IPR001789	Signal transduction response regulator, receiver domain	Domain
A, B, E [auth C], F [auth D]	IPR016032	Signal transduction response regulator, C-terminal effector	Homologous Superfamily
A, B, E [auth C], F [auth D]	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.