HAMAP rule MF_00016

General rule information [?]

Accession	MF_00016
Dates	1-JUN-2001 (Created) 1-JUN-2023 (Last updated, Version 34)
Name	DNA_HJ_migration_RuvB
Scope(s)	Bacteria Archaea Methanomicrobiales
Template(s)	P0A812 (RUVB_ECOLI); Q5SL87 (RUVB_THET8); Q5M2B1 (RUVB_STRT2); [ Recover all ]
Triggered by	HAMAP; MF_00016 (Get profile general information and statistics)

Propagated annotation [?]

Identifier, protein and gene names [?]

Identifier	RUVB
Protein name	RecName: Full=Holliday junction branch migration complex subunit RuvB; EC=3.6.4.12;
Gene name	Name=ruvB;

Comments [?]

FUNCTION	The RuvA-RuvB-RuvC complex processes Holliday junction (HJ) DNA during genetic recombination and DNA repair, while the RuvA-RuvB complex plays an important role in the rescue of blocked DNA replication forks via replication fork reversal (RFR). RuvA specifically binds to HJ cruciform DNA, conferring on it an open structure. The RuvB hexamer acts as an ATP-dependent pump, pulling dsDNA into and through the RuvAB complex. RuvB forms 2 homohexamers on either side of HJ DNA bound by 1 or 2 RuvA tetramers; 4 subunits per hexamer contact DNA at a time. Coordinated motions by a converter formed by DNA-disengaged RuvB subunits stimulates ATP hydrolysis and nucleotide exchange. Immobilization of the converter enables RuvB to convert the ATP-contained energy into a lever motion, pulling 2 nucleotides of DNA out of the RuvA tetramer per ATP hydrolyzed, thus driving DNA branch migration. The RuvB motors rotate together with the DNA substrate, which together with the progressing nucleotide cycle form the mechanistic basis for DNA recombination by continuous HJ branch migration. Branch migration allows RuvC to scan DNA until it finds its consensus sequence, where it cleaves and resolves cruciform DNA.
CATALYTIC ACTIVITY	Reaction=ATP + H2O = ADP + H(+) + phosphate; Xref=Rhea:RHEA:13065, ChEBI:CHEBI:15377, ChEBI:CHEBI:15378, ChEBI:CHEBI:30616, ChEBI:CHEBI:43474, ChEBI:CHEBI:456216; EC=3.6.4.12;
SUBUNIT	Homohexamer. Forms an RuvA(8)-RuvB(12)-Holliday junction (HJ) complex. HJ DNA is sandwiched between 2 RuvA tetramers; dsDNA enters through RuvA and exits via RuvB. An RuvB hexamer assembles on each DNA strand where it exits the tetramer. Each RuvB hexamer is contacted by two RuvA subunits (via domain III) on 2 adjacent RuvB subunits; this complex drives branch migration. In the full resolvosome a probable DNA-RuvA(4)-RuvB(12)-RuvC(2) complex forms which resolves the HJ.
SUBCELLULAR LOCATION	Cytoplasm.
DOMAIN	Has 3 domains, the large (RuvB-L) and small ATPase (RuvB-S) domains and the C-terminal head (RuvB-H) domain. The head domain binds DNA, while the ATPase domains jointly bind ATP, ADP or are empty depending on the state of the subunit in the translocation cycle. During a single DNA translocation step the structure of each domain remains the same, but their relative positions change.
SIMILARITY	Belongs to the RuvB family.

Keywords [?]

Cytoplasm
DNA damage
DNA repair
case <OC:Escherichia>
SOS response
end case
DNA-binding
ATP-binding
Nucleotide-binding
DNA recombination
Hydrolase

Gene Ontology [?]

GO:0005524; Molecular function:ATP binding
GO:0000400; Molecular function:four-way junction DNA binding
GO:0048476; Cellular component:Holliday junction resolvase complex
GO:0006310; Biological process:DNA recombination
GO:0006281; Biological process:DNA repair
case <OCellular component:Escherichia>
GO:0009432; Biological process:SOS response
end case

Cross-references [?]

Pfam	PF17864; AAA_lid_4; 1;
Pfam	PF05491; RuvB_C; 1;
Pfam	PF05496; RuvB_N; 1;
NCBIfam	TIGR00635; RuvB; 1;

Features [?]

From: RUVB_STRT2 (Q5M2B1)

Key

From

Description

Tag

Condition

FTGroup

REGION

181

/note="Large ATPase domain (RuvB-L)"

REGION

182

252

/note="Small ATPAse domain (RuvB-S)"

REGION

255

Cter

/note="Head domain (RuvB-H)"

BINDING