(15 nodes) Mismatch repair network (Synechococcus sp. CB0101)

Nodes:

Network nodes represent proteins

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

Node Color

colored nodes:
query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

empty nodes:
proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:
	dnaX	Unannotated protein; 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. (622 aa)
	mutS	Unannotated protein; 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. (923 aa)
	holA	Unannotated protein. (325 aa)
	CB0101_08610	Unannotated protein; 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 replication [...] (376 aa)
	CB0101_09090	Unannotated protein. (129 aa)
	CB0101_09410	Unannotated protein. (802 aa)
	mutS2	Unannotated protein; Endonuclease that is involved in the suppression of homologous recombination and may therefore have a key role in the control of bacterial genetic diversity; Belongs to the DNA mismatch repair MutS family. MutS2 subfamily. (861 aa)
	recJ	Unannotated protein. (642 aa)
	CB0101_02175	Unannotated protein. (548 aa)
	CB0101_03605	Unannotated protein. (304 aa)
	CB0101_03520	Unannotated protein. (1178 aa)
	ligA	Unannotated protein; 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. (690 aa)
	CB0101_14595	Unannotated protein. (327 aa)
	xseA	Unannotated protein; Bidirectionally degrades single-stranded DNA into large acid- insoluble oligonucleotides, which are then degraded further into small acid-soluble oligonucleotides; Belongs to the XseA family. (385 aa)
	xseB	Unannotated protein; Bidirectionally degrades single-stranded DNA into large acid- insoluble oligonucleotides, which are then degraded further into small acid-soluble oligonucleotides; Belongs to the XseB family. (85 aa)

Your Current Organism:

Synechococcus sp. CB0101

NCBI taxonomy Id: 232348
Other names: S. sp. CB0101

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
CB0101_02175	CB0101_08610	GCA_000179235_01591	GCA_000179235_00154	Unannotated protein.	Unannotated protein; 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 replication [...]	0.979
CB0101_02175	CB0101_14595	GCA_000179235_01591	GCA_000179235_02377	Unannotated protein.	Unannotated protein.	0.799
CB0101_02175	ligA	GCA_000179235_01591	GCA_000179235_02298	Unannotated protein.	Unannotated protein; 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.	0.928
CB0101_03520	CB0101_03605	GCA_000179235_01711	GCA_000179235_01694	Unannotated protein.	Unannotated protein.	0.969
CB0101_03520	CB0101_08610	GCA_000179235_01711	GCA_000179235_00154	Unannotated protein.	Unannotated protein; 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 replication [...]	0.993
CB0101_03520	CB0101_09090	GCA_000179235_01711	GCA_000179235_00212	Unannotated protein.	Unannotated protein.	0.918
CB0101_03520	CB0101_09410	GCA_000179235_01711	GCA_000179235_00286	Unannotated protein.	Unannotated protein.	0.501
CB0101_03520	CB0101_14595	GCA_000179235_01711	GCA_000179235_02377	Unannotated protein.	Unannotated protein.	0.993
CB0101_03520	dnaX	GCA_000179235_01711	GCA_000179235_00062	Unannotated protein.	Unannotated protein; 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.	0.994
CB0101_03520	holA	GCA_000179235_01711	GCA_000179235_00147	Unannotated protein.	Unannotated protein.	0.993
CB0101_03605	CB0101_03520	GCA_000179235_01694	GCA_000179235_01711	Unannotated protein.	Unannotated protein.	0.969
CB0101_03605	CB0101_08610	GCA_000179235_01694	GCA_000179235_00154	Unannotated protein.	Unannotated protein; 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 replication [...]	0.970
CB0101_03605	CB0101_14595	GCA_000179235_01694	GCA_000179235_02377	Unannotated protein.	Unannotated protein.	0.916
CB0101_03605	dnaX	GCA_000179235_01694	GCA_000179235_00062	Unannotated protein.	Unannotated protein; 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.	0.967
CB0101_03605	holA	GCA_000179235_01694	GCA_000179235_00147	Unannotated protein.	Unannotated protein.	0.936
CB0101_08610	CB0101_02175	GCA_000179235_00154	GCA_000179235_01591	Unannotated protein; 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 replication [...]	Unannotated protein.	0.979
CB0101_08610	CB0101_03520	GCA_000179235_00154	GCA_000179235_01711	Unannotated protein; 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 replication [...]	Unannotated protein.	0.993
CB0101_08610	CB0101_03605	GCA_000179235_00154	GCA_000179235_01694	Unannotated protein; 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 replication [...]	Unannotated protein.	0.970
CB0101_08610	CB0101_09090	GCA_000179235_00154	GCA_000179235_00212	Unannotated protein; 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 replication [...]	Unannotated protein.	0.712
CB0101_08610	CB0101_09410	GCA_000179235_00154	GCA_000179235_00286	Unannotated protein; 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 replication [...]	Unannotated protein.	0.899