(22 nodes) DNA replication, and Bacterial nucleoid network (Enterococcus rotai)

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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

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query proteins and first shell of interactors

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second shell of interactors

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proteins of unknown 3D structure

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a 3D structure is known or predicted

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experimentally determined

Predicted Interactions

gene neighborhood

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Your Input:
	ligA	Aromatic ring-opening dioxygenase LigA; DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double- stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA; Belongs to the NAD-dependent DNA ligase family. LigA subfamily. (681 aa)
	ALS38718.1	ATP-dependent DNA helicase PcrA; Derived by automated computational analysis using gene prediction method: Protein Homology. (746 aa)
	ALS35738.1	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology. (177 aa)
	ALS35769.1	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology. (316 aa)
	recR	Recombination protein RecR; May play a role in DNA repair. It seems to be involved in an RecBC-independent recombinational process of DNA repair. It may act with RecF and RecO. (198 aa)
	dnaX	DNA polymerase III subunit gamma/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. (584 aa)
	recG	ATP-dependent DNA helicase RecG; Critical role in recombination and DNA repair. Helps process Holliday junction intermediates to mature products by catalyzing branch migration. Has a DNA unwinding activity characteristic of a DNA helicase with a 3'- to 5'- polarity. Unwinds branched duplex DNA (Y- DNA); Belongs to the helicase family. RecG subfamily. (678 aa)
	ALS36556.1	Replicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity. Belongs to the helicase family. DnaB subfamily. (456 aa)
	ALS36560.1	Single-stranded DNA-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. (183 aa)
	ALS36583.1	DNA polymerase III subunit beta; 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 [...] (376 aa)
	dnaA	Chromosomal replication initiator DnaA; Plays an important role in the initiation and regulation of chromosomal replication. Binds to the origin of replication; it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box): 5'- TTATC[CA]A[CA]A-3'. DnaA binds to ATP and to acidic phospholipids. Belongs to the DnaA family. (447 aa)
	ALS37412.1	DNA topoisomerase III; Derived by automated computational analysis using gene prediction method: Protein Homology. (693 aa)
	dinG	DNA polymerase III subunit epsilon; 3'-5' exonuclease. (921 aa)
	ALS38009.1	Recombinase RecQ; Derived by automated computational analysis using gene prediction method: Protein Homology. (479 aa)
	topA	DNA topoisomerase I; Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA- (5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supe [...] (692 aa)
	ALS38090.1	single-stranded-DNA-specific exonuclease RecJ; Derived by automated computational analysis using gene prediction method: Protein Homology. (769 aa)
	dnaG	DNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication. (637 aa)
	polC	DNA polymerase III subunit alpha; Required for replicative DNA synthesis. This DNA polymerase also exhibits 3' to 5' exonuclease activity. (1450 aa)
	recO	DNA repair protein RecO; Involved in DNA repair and RecF pathway recombination. (269 aa)
	ALS38252.1	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology. (343 aa)
	dnaE	DNA polymerase III subunit alpha; Catalyzes DNA-template-directed extension of the 3'-end of a DNA strand by one nucleotide at a time. Proposed to be responsible for the synthesis of the lagging strand. In the low GC gram positive bacteria this enzyme is less processive and more error prone than its counterpart in other bacteria; Derived by automated computational analysis using gene prediction method: Protein Homology. (1110 aa)
	polA	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity. (881 aa)

Your Current Organism:

Enterococcus rotai

NCBI taxonomy Id: 118060
Other names: CCM 4630, CCUG 61593, E. rotai, Enterococcus rotai Sedlacek et al. 2013, Enterococcus sp. CCM 4360, LMG 26678, LMG:26678

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ALS35738.1	ALS35769.1	ATZ35_00760	ATZ35_00920	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.848
ALS35738.1	ALS36583.1	ATZ35_00760	ATZ35_05225	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit beta; 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 [...]	0.954
ALS35738.1	ALS38009.1	ATZ35_00760	ATZ35_12910	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	Recombinase RecQ; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.413
ALS35738.1	ALS38252.1	ATZ35_00760	ATZ35_14175	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.922
ALS35738.1	ALS38718.1	ATZ35_00760	ATZ35_00210	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	ATP-dependent DNA helicase PcrA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.583
ALS35738.1	dnaE	ATZ35_00760	ATZ35_14270	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit alpha; Catalyzes DNA-template-directed extension of the 3'-end of a DNA strand by one nucleotide at a time. Proposed to be responsible for the synthesis of the lagging strand. In the low GC gram positive bacteria this enzyme is less processive and more error prone than its counterpart in other bacteria; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.959
ALS35738.1	dnaX	ATZ35_00760	ATZ35_00975	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit gamma/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.	0.958
ALS35738.1	ligA	ATZ35_00760	ATZ35_00205	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	Aromatic ring-opening dioxygenase LigA; DNA ligase that catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double- stranded DNA using NAD as a coenzyme and as the energy source for the reaction. It is essential for DNA replication and repair of damaged DNA; Belongs to the NAD-dependent DNA ligase family. LigA subfamily.	0.496
ALS35738.1	polA	ATZ35_00760	ATZ35_14640	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase I; In addition to polymerase activity, this DNA polymerase exhibits 5'-3' exonuclease activity.	0.721
ALS35738.1	polC	ATZ35_00760	ATZ35_13835	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit alpha; Required for replicative DNA synthesis. This DNA polymerase also exhibits 3' to 5' exonuclease activity.	0.809
ALS35769.1	ALS35738.1	ATZ35_00920	ATZ35_00760	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	Exonuclease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.848
ALS35769.1	ALS36556.1	ATZ35_00920	ATZ35_05090	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	Replicative DNA helicase; Participates in initiation and elongation during chromosome replication; it exhibits DNA-dependent ATPase activity. Belongs to the helicase family. DnaB subfamily.	0.445
ALS35769.1	ALS36583.1	ATZ35_00920	ATZ35_05225	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit beta; 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 [...]	0.998
ALS35769.1	ALS37412.1	ATZ35_00920	ATZ35_09680	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA topoisomerase III; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.546
ALS35769.1	ALS38009.1	ATZ35_00920	ATZ35_12910	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	Recombinase RecQ; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.858
ALS35769.1	ALS38252.1	ATZ35_00920	ATZ35_14175	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.997
ALS35769.1	dinG	ATZ35_00920	ATZ35_11580	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit epsilon; 3'-5' exonuclease.	0.961
ALS35769.1	dnaE	ATZ35_00920	ATZ35_14270	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit alpha; Catalyzes DNA-template-directed extension of the 3'-end of a DNA strand by one nucleotide at a time. Proposed to be responsible for the synthesis of the lagging strand. In the low GC gram positive bacteria this enzyme is less processive and more error prone than its counterpart in other bacteria; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.996
ALS35769.1	dnaG	ATZ35_00920	ATZ35_13445	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication.	0.481
ALS35769.1	dnaX	ATZ35_00920	ATZ35_00975	DNA polymerase III subunit delta; Derived by automated computational analysis using gene prediction method: Protein Homology.	DNA polymerase III subunit gamma/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.	0.998