(14 nodes) DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) activity, and DNA excision network (Bacteroides acidifaciens)

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	ruvC	Unannotated protein; Nuclease that resolves Holliday junction intermediates in genetic recombination. Cleaves the cruciform structure in supercoiled DNA by nicking to strands with the same polarity at sites symmetrically opposed at the junction in the homologous arms and leaves a 5'-terminal phosphate and a 3'-terminal hydroxyl group. (188 aa)
	uvrC	Unannotated protein; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision. (633 aa)
	ruvA	Unannotated protein; The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. RuvA stimulates, in the presence of DNA, the weak ATPase activity of RuvB. (202 aa)
	gyrA	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner. (859 aa)
	uvrA	Unannotated protein; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by UvrB, the UvrA molecules dissociate. (841 aa)
	ybaK	Unannotated protein; Belongs to the prolyl-tRNA editing family. YbaK/EbsC subfamily. (303 aa)
	ruvB	Unannotated protein; The RuvA-RuvB complex in the presence of ATP renatures cruciform structure in supercoiled DNA with palindromic sequence, indicating that it may promote strand exchange reactions in homologous recombination. RuvAB is a helicase that mediates the Holliday junction migration by localized denaturation and reannealing. (344 aa)
	uvrB	Unannotated protein; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. Upon binding of the UvrA(2)B(2) complex to a putative damaged site, the DNA wraps around one UvrB monomer. DNA wrap is dependent on ATP binding by UvrB and probably causes local melting of the DNA helix, facilitating insertion of UvrB beta-hairpin between the DNA strands. Then UvrB probes one DNA strand for the presence of a lesion. If a lesion is found the UvrA subunits dissociate and the [...] (677 aa)
	D7Y07_04115	Unannotated protein. (625 aa)
	uvrA-2	Unannotated protein; The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 UvrA and 2 UvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by UvrB, the UvrA molecules dissociate. (923 aa)
	GCA_000613385_04115	Unannotated protein. (414 aa)
	gyrB	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner. (652 aa)
	GCA_000613385_04800	Unannotated protein. (110 aa)
	D7Y07_12895	Unannotated protein. (676 aa)

Your Current Organism:

Bacteroides acidifaciens

NCBI taxonomy Id: 1235814
Other names: B. acidifaciens JCM 10556, Bacteroides acidifaciens JCM 10556

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
D7Y07_04115	D7Y07_12895	GCA_000613385_03703	GCA_000613385_04801	Unannotated protein.	Unannotated protein.	0.989
D7Y07_04115	GCA_000613385_04800	GCA_000613385_03703	GCA_000613385_04800	Unannotated protein.	Unannotated protein.	0.955
D7Y07_04115	gyrA	GCA_000613385_03703	GCA_000613385_02065	Unannotated protein.	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	0.981
D7Y07_12895	D7Y07_04115	GCA_000613385_04801	GCA_000613385_03703	Unannotated protein.	Unannotated protein.	0.989
D7Y07_12895	GCA_000613385_04115	GCA_000613385_04801	GCA_000613385_04115	Unannotated protein.	Unannotated protein.	0.472
D7Y07_12895	GCA_000613385_04800	GCA_000613385_04801	GCA_000613385_04800	Unannotated protein.	Unannotated protein.	0.938
D7Y07_12895	gyrB	GCA_000613385_04801	GCA_000613385_04676	Unannotated protein.	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	0.975
GCA_000613385_04115	D7Y07_12895	GCA_000613385_04115	GCA_000613385_04801	Unannotated protein.	Unannotated protein.	0.472
GCA_000613385_04115	GCA_000613385_04800	GCA_000613385_04115	GCA_000613385_04800	Unannotated protein.	Unannotated protein.	0.472
GCA_000613385_04115	gyrA	GCA_000613385_04115	GCA_000613385_02065	Unannotated protein.	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	0.593
GCA_000613385_04115	gyrB	GCA_000613385_04115	GCA_000613385_04676	Unannotated protein.	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	0.563
GCA_000613385_04800	D7Y07_04115	GCA_000613385_04800	GCA_000613385_03703	Unannotated protein.	Unannotated protein.	0.955
GCA_000613385_04800	D7Y07_12895	GCA_000613385_04800	GCA_000613385_04801	Unannotated protein.	Unannotated protein.	0.938
GCA_000613385_04800	GCA_000613385_04115	GCA_000613385_04800	GCA_000613385_04115	Unannotated protein.	Unannotated protein.	0.472
GCA_000613385_04800	gyrB	GCA_000613385_04800	GCA_000613385_04676	Unannotated protein.	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	0.954
gyrA	D7Y07_04115	GCA_000613385_02065	GCA_000613385_03703	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	Unannotated protein.	0.981
gyrA	GCA_000613385_04115	GCA_000613385_02065	GCA_000613385_04115	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	Unannotated protein.	0.593
gyrA	gyrB	GCA_000613385_02065	GCA_000613385_04676	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	0.994
gyrB	D7Y07_12895	GCA_000613385_04676	GCA_000613385_04801	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	Unannotated protein.	0.975
gyrB	GCA_000613385_04115	GCA_000613385_04676	GCA_000613385_04115	Unannotated protein; A type II topoisomerase that negatively supercoils closed circular double-stranded (ds) DNA in an ATP-dependent manner to modulate DNA topology and maintain chromosomes in an underwound state. Negative supercoiling favors strand separation, and DNA replication, transcription, recombination and repair, all of which involve strand separation. Also able to catalyze the interconversion of other topological isomers of dsDNA rings, including catenanes and knotted rings. Type II topoisomerases break and join 2 DNA strands simultaneously in an ATP-dependent manner.	Unannotated protein.	0.563