7X5A | pdb_00007x5a

CryoEM structure of RuvA-Holliday junction complex

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
H [auth D]	RuvA_N	e7x5aD1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: RuvA_N	ECOD (1.6)
H [auth D]	HHH_5	e7x5aD2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: HHH_5	ECOD (1.6)
I [auth E]	RuvA_N	e7x5aE1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: RuvA_N	ECOD (1.6)
I [auth E]	HHH_5	e7x5aE2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: HHH_5	ECOD (1.6)
J [auth F]	RuvA_N	e7x5aF2	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: RuvA_N	ECOD (1.6)
J [auth F]	HHH_5	e7x5aF1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: HHH_5	ECOD (1.6)
E [auth A]	RuvA_N	e7x5aA1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: RuvA_N	ECOD (1.6)
E [auth A]	HHH_5	e7x5aA2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: HHH_5	ECOD (1.6)
F [auth B]	RuvA_N	e7x5aB2	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: RuvA_N	ECOD (1.6)
F [auth B]	HHH_5	e7x5aB1	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: HHH_5	ECOD (1.6)
G [auth C]	RuvA_N	e7x5aC1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: RuvA_N	ECOD (1.6)
G [auth C]	HHH_5	e7x5aC2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: HHH_5	ECOD (1.6)
K [auth G]	RuvA_N	e7x5aG1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: RuvA_N	ECOD (1.6)
K [auth G]	HHH_5	e7x5aG2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: HHH_5	ECOD (1.6)
L [auth H]	RuvA_N	e7x5aH1	A: beta barrels	X: OB-fold	H: Nucleic acid-binding proteins (From Topology)	T: Nucleic acid-binding proteins	F: RuvA_N	ECOD (1.6)
L [auth H]	HHH_5	e7x5aH2	A: alpha arrays	X: HhH/H2TH	H: SAM/DNA-glycosylase	T: SAM domain-like	F: HHH_5	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], J [auth F], K [auth G], L [auth H]	PF01330	RuvA N terminal domain (RuvA_N)	RuvA N terminal domain	The N terminal domain of RuvA has an OB-fold structure. This domain forms the RuvA tetramer contacts [1].	Domain
E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], J [auth F], K [auth G], L [auth H]	PF14520	Helix-hairpin-helix domain (HHH_5)	Helix-hairpin-helix domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth I]	DNA (26-MER)	-	-	-
B [auth J]	DNA (26-MER)	-	-	-
C [auth K]	DNA (26-MER)	-	-	-
D [auth L]	DNA (26-MER)	-	-	-
E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], J [auth F], K [auth G], L [auth H]	Holliday junction ATP-dependent DNA helicase RuvA	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding nucleic acid conformation isomerase activity four-way junction helicase activity isomerase activity DNA helicase activity catalytic activity, acting on a nucleic acid helicase activity ATP-dependent activity ATP-dependent activity, acting on DNA catalytic activity, acting on DNA catalytic activity macromolecular conformation isomerase activity DNA secondary structure binding DNA binding four-way junction DNA binding nucleic acid binding	cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair SOS response cellular response to stimulus response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process cellular response to stress DNA damage response response to stress metabolic process cellular process macromolecule metabolic process DNA repair SOS response DNA recombination	protein-containing complex catalytic complex DNA helicase complex Holliday junction helicase complex endodeoxyribonuclease complex Holliday junction resolvase complex intracellular protein-containing complex endonuclease complex cellular anatomical structure intracellular anatomical structure cytoplasm

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], J [auth F], K [auth G], L [auth H]	IPR036267	RuvA, C-terminal domain superfamily	Homologous Superfamily
E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], J [auth F], K [auth G], L [auth H]	IPR011114	Holliday junction DNA helicase RuvA, C-terminal	Domain
E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], J [auth F], K [auth G], L [auth H]	IPR000085	Holliday junction branch migration complex subunit RuvA	Family
E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], J [auth F], K [auth G], L [auth H]	IPR010994	RuvA domain 2-like	Homologous Superfamily
E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], J [auth F], K [auth G], L [auth H]	IPR013849	DNA helicase, Holliday junction RuvA type, domain I, bacterial	Domain
E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], J [auth F], K [auth G], L [auth H]	IPR012340	Nucleic acid-binding, OB-fold	Homologous Superfamily
E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], E [auth A], F [auth B], G [auth C], H [auth D], I [auth E], J [auth F], K [auth G], L [auth H]	IPR003583	Helix-hairpin-helix DNA-binding motif, class 1	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.