(24 nodes) Mismatch repair, and Deoxyribonuclease activity network (Dichelobacter nodosus)

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Your Input:
	dnaN	DNA polymerase III, beta subunit; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...] (414 aa)
	uvrA	Excinuclease ABC, A subunit; 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. (937 aa)
	ssb-1	Single-strand binding protein; Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism. (169 aa)
	uvrD-1	DNA helicase II; Identified by match to protein family HMM PF00580. (712 aa)
	polA	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family. (901 aa)
	holA	DNA polymerase III, delta subunit; Identified by match to protein family HMM PF06144; match to protein family HMM TIGR01128. (339 aa)
	recC	Exodeoxyribonuclease V, gamma subunit. (1090 aa)
	uvrC	Excinuclease ABC, C subunit; 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. (607 aa)
	priA	Primosomal protein N; Involved in the restart of stalled replication forks. Recognizes and binds the arrested nascent DNA chain at stalled replication forks. It can open the DNA duplex, via its helicase activity, and promote assembly of the primosome and loading of the major replicative helicase DnaB onto DNA; Belongs to the helicase family. PriA subfamily. (710 aa)
	uvrD-2	DNA helicase UvrD; Rep helicase is a single-stranded DNA-dependent ATPase involved in DNA replication; it can initiate unwinding at a nick in the DNA. It binds to the single-stranded DNA and acts in a progressive fashion along the DNA in the 3' to 5' direction. (664 aa)
	recD	Exonuclease V, alpha subunit; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Ho [...] (524 aa)
	holC	DNA polymerase III chi subunit; Identified by match to protein family HMM PF04364. (141 aa)
	uvrB	Excinuclease ABC, B subunit; 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 [...] (669 aa)
	DNO_0572	Helicase domain protein. (645 aa)
	dnaE	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594. (1175 aa)
	DNO_0763	Identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04851. (537 aa)
	ssb-2	Single-strand binding protein; Identified by match to protein family HMM PF00436; match to protein family HMM TIGR00621. (151 aa)
	dnaQ	DNA polymerase III, epsilon subunit; DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'- 5' exonuclease. (233 aa)
	dnaX	DNA polymerase III, subunits gamma and tau; DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity. (665 aa)
	rnhA	RNase H; Endonuclease that specifically degrades the RNA of RNA-DNA hybrids. (150 aa)
	mutL	DNA mismatch repair protein MutL; This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a 'molecular matchmaker', a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex. (590 aa)
	recB	Exonuclease V, beta subunit; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Hol [...] (1198 aa)
	holB	DNA polymerase III, delta' subunit; Identified by match to protein family HMM PF00627. (316 aa)
	mutS	DNA mismatch repair protein MutS; This protein is involved in the repair of mismatches in DNA. It is possible that it carries out the mismatch recognition step. This protein has a weak ATPase activity. (861 aa)

Your Current Organism:

Dichelobacter nodosus

NCBI taxonomy Id: 246195
Other names: D. nodosus VCS1703A, Dichelobacter nodosus VCS1703A, Dichelobacter nodosus str. VCS1703A

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
DNO_0572	DNO_0763	DNO_0572	DNO_0763	Helicase domain protein.	Identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04851.	0.961
DNO_0572	dnaN	DNO_0572	DNO_0002	Helicase domain protein.	DNA polymerase III, beta subunit; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	0.786
DNO_0572	holB	DNO_0572	DNO_1214	Helicase domain protein.	DNA polymerase III, delta' subunit; Identified by match to protein family HMM PF00627.	0.546
DNO_0572	mutL	DNO_0572	DNO_1116	Helicase domain protein.	DNA mismatch repair protein MutL; This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. May act as a 'molecular matchmaker', a protein that promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex.	0.501
DNO_0572	polA	DNO_0572	DNO_0206	Helicase domain protein.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.922
DNO_0572	recD	DNO_0572	DNO_0408	Helicase domain protein.	Exonuclease V, alpha subunit; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Ho [...]	0.433
DNO_0763	DNO_0572	DNO_0763	DNO_0572	Identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04851.	Helicase domain protein.	0.961
DNO_0763	dnaN	DNO_0763	DNO_0002	Identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04851.	DNA polymerase III, beta subunit; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	0.491
DNO_0763	polA	DNO_0763	DNO_0206	Identified by match to protein family HMM PF00270; match to protein family HMM PF00271; match to protein family HMM PF04851.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.941
dnaE	dnaN	DNO_0688	DNO_0002	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	DNA polymerase III, beta subunit; Confers DNA tethering and processivity to DNA polymerases and other proteins. Acts as a clamp, forming a ring around DNA (a reaction catalyzed by the clamp-loading complex) which diffuses in an ATP- independent manner freely and bidirectionally along dsDNA. Initially characterized for its ability to contact the catalytic subunit of DNA polymerase III (Pol III), a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria; Pol III exhibits 3'-5' exonuclease proofreading activity. The beta chain is required for initiation of [...]	0.993
dnaE	dnaQ	DNO_0688	DNO_0906	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	DNA polymerase III, epsilon subunit; DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. The epsilon subunit contain the editing function and is a proofreading 3'- 5' exonuclease.	0.992
dnaE	dnaX	DNO_0688	DNO_0955	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	DNA polymerase III, subunits gamma and tau; DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria. This DNA polymerase also exhibits 3' to 5' exonuclease activity.	0.993
dnaE	holA	DNO_0688	DNO_0244	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	DNA polymerase III, delta subunit; Identified by match to protein family HMM PF06144; match to protein family HMM TIGR01128.	0.992
dnaE	holB	DNO_0688	DNO_1214	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	DNA polymerase III, delta' subunit; Identified by match to protein family HMM PF00627.	0.994
dnaE	holC	DNO_0688	DNO_0457	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	DNA polymerase III chi subunit; Identified by match to protein family HMM PF04364.	0.989
dnaE	polA	DNO_0688	DNO_0206	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity; Belongs to the DNA polymerase type-A family.	0.624
dnaE	recB	DNO_0688	DNO_1165	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	Exonuclease V, beta subunit; A helicase/nuclease that prepares dsDNA breaks (DSB) for recombinational DNA repair. Binds to DSBs and unwinds DNA via a highly rapid and processive ATP-dependent bidirectional helicase activity. Unwinds dsDNA until it encounters a Chi (crossover hotspot instigator) sequence from the 3' direction. Cuts ssDNA a few nucleotides 3' to the Chi site. The properties and activities of the enzyme are changed at Chi. The Chi-altered holoenzyme produces a long 3'-ssDNA overhang and facilitates RecA-binding to the ssDNA for homologous DNA recombination and repair. Hol [...]	0.479
dnaE	ssb-1	DNO_0688	DNO_0126	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	Single-strand binding protein; Plays an important role in DNA replication, recombination and repair. Binds to ssDNA and to an array of partner proteins to recruit them to their sites of action during DNA metabolism.	0.730
dnaE	ssb-2	DNO_0688	DNO_0767	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	Single-strand binding protein; Identified by match to protein family HMM PF00436; match to protein family HMM TIGR00621.	0.730
dnaE	uvrD-2	DNO_0688	DNO_0381	DNA polymerase III, alpha subunit; Identified by match to protein family HMM PF01336; match to protein family HMM PF02811; match to protein family HMM PF07733; match to protein family HMM TIGR00594.	DNA helicase UvrD; Rep helicase is a single-stranded DNA-dependent ATPase involved in DNA replication; it can initiate unwinding at a nick in the DNA. It binds to the single-stranded DNA and acts in a progressive fashion along the DNA in the 3' to 5' direction.	0.436