4XQN

Crystal structure of AgrA LytTR domain in complex with promoters

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)
I [auth A]	SCOP2B Superfamily	Chromo domain-like	8092314	3000161	SCOP2B (2022-06-29)
I [auth A]	SCOP2B Superfamily	Chromo domain-like	8092313	3000161	SCOP2B (2022-06-29)
J [auth D]	SCOP2B Superfamily	Chromo domain-like	8092314	3000161	SCOP2B (2022-06-29)
J [auth D]	SCOP2B Superfamily	Chromo domain-like	8092313	3000161	SCOP2B (2022-06-29)
K [auth G]	SCOP2B Superfamily	Chromo domain-like	8092313	3000161	SCOP2B (2022-06-29)
K [auth G]	SCOP2B Superfamily	Chromo domain-like	8092314	3000161	SCOP2B (2022-06-29)
L [auth J]	SCOP2B Superfamily	Chromo domain-like	8092314	3000161	SCOP2B (2022-06-29)
L [auth J]	SCOP2B Superfamily	Chromo domain-like	8092313	3000161	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)
I [auth A]	LytTR_C	e4xqnA1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: LytTR_C	ECOD (1.6)
I [auth A]	LytT	e4xqnA2	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: LytT	ECOD (1.6)
J [auth D]	LytTR_C	e4xqnD1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: LytTR_C	ECOD (1.6)
J [auth D]	LytT	e4xqnD2	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: LytT	ECOD (1.6)
K [auth G]	LytTR_C	e4xqnG2	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: LytTR_C	ECOD (1.6)
K [auth G]	LytT	e4xqnG1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: LytT	ECOD (1.6)
L [auth J]	LytTR_C	e4xqnJ2	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: LytTR_C	ECOD (1.6)
L [auth J]	LytT	e4xqnJ1	A: beta barrels	X: SH3	H: Chromo domain-like (From Topology)	T: Chromo domain-like	F: LytT	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
I [auth A]	2.40.50.1020	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	LytTr DNA-binding domain	CATH (4.3.0)
J [auth D]	2.40.50.1020	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	LytTr DNA-binding domain	CATH (4.3.0)
K [auth G]	2.40.50.1020	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	LytTr DNA-binding domain	CATH (4.3.0)
L [auth J]	2.40.50.1020	Mainly Beta	Beta Barrel	OB fold (Dihydrolipoamide Acetyltransferase, E2P)	LytTr DNA-binding domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
I [auth A], J [auth D], K [auth G], L [auth J]	PF04397	LytTr DNA-binding domain (LytTR)	LytTr DNA-binding domain	This domain is found in a variety of bacterial transcriptional regulators. The domain binds to a specific DNA sequence pattern (see [1]).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth B], C [auth E], E [auth H], G [auth K]	DNA (5'-D(APCPAPGPTPTPAPAPGPAPAPT)-3')	-	-	-
B [auth C], D [auth F], F [auth I], H [auth L]	DNA (5'-D(PAPAPTPTPCPTPTPAPAPCPTPGP*T)-3')	-	-	-
I [auth A], J [auth D], K [auth G], L [auth J]	Accessory gene regulator A	DNA binding binding organic cyclic compound binding nucleic acid binding molecular transducer activity phosphorelay response regulator activity	-	intracellular anatomical structure cytoplasm cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I [auth A], J [auth D], K [auth G], L [auth J]	IPR011006	CheY-like superfamily	Homologous Superfamily
I [auth A], J [auth D], K [auth G], L [auth J]	IPR001789	Signal transduction response regulator, receiver domain	Domain
I [auth A], J [auth D], K [auth G], L [auth J]	IPR007492	LytTR DNA-binding domain	Domain
I [auth A], J [auth D], K [auth G], L [auth J]	IPR046947	Transcriptional regulatory protein LytR-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 R01GM133198.