dnaX protein (Bifidobacterium dentium) - STRING interaction network

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.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

Your Input:

Neighborhood

Gene Fusion

Co-occurrence

Co-expression

Experiments

Databases

Textmining

[Homology]

Score

dnaX

DNA polymerase III subunits gamma and tau. (851 aa)

Predicted Functional Partners:

BDP_1216

0.982

dnaE

0.982

BDP_0002

0.981

dnaQ

0.931

dnaQ-2

0.931

BDP_0251

0.927

recR

0.801

dnaG

0.736

BDP_0631

0.702

ssb

0.619

Your Current Organism:

Bifidobacterium dentium

NCBI taxonomy Id: 401473
Other names: B. dentium Bd1, Bifidobacterium dentium Bd1, Bifidobacterium dentium str. Bd1, Bifidobacterium dentium strain Bd1

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 proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
BDP_0002	BDP_0251	BDP_0002	BDP_0251	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 [...]	DNA polymerase III subunit delta prime subunit.	0.982
BDP_0002	BDP_0631	BDP_0002	BDP_0631	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 [...]	Single-strand DNA binding protein.	0.492
BDP_0002	BDP_1216	BDP_0002	BDP_1216	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 [...]	DNA polymerase III, delta subunit.	0.991
BDP_0002	dnaE	BDP_0002	BDP_1585	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 [...]	DnaE DNA polymerase III alpha subunit.	0.990
BDP_0002	dnaG	BDP_0002	BDP_0680	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 [...]	dnaG DNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication.	0.559
BDP_0002	dnaQ	BDP_0002	BDP_0937	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 [...]	DNA polymerase III, epsilon subunit.	0.953
BDP_0002	dnaQ-2	BDP_0002	BDP_1371	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 [...]	dnaQ DNA polymerase III alpha subunit.	0.945
BDP_0002	dnaX	BDP_0002	BDP_0228	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 [...]	DNA polymerase III subunits gamma and tau.	0.981
BDP_0251	BDP_0002	BDP_0251	BDP_0002	DNA polymerase III subunit delta prime subunit.	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 [...]	0.982
BDP_0251	BDP_0631	BDP_0251	BDP_0631	DNA polymerase III subunit delta prime subunit.	Single-strand DNA binding protein.	0.790
BDP_0251	BDP_1216	BDP_0251	BDP_1216	DNA polymerase III subunit delta prime subunit.	DNA polymerase III, delta subunit.	0.991
BDP_0251	dnaE	BDP_0251	BDP_1585	DNA polymerase III subunit delta prime subunit.	DnaE DNA polymerase III alpha subunit.	0.980
BDP_0251	dnaG	BDP_0251	BDP_0680	DNA polymerase III subunit delta prime subunit.	dnaG DNA primase; RNA polymerase that catalyzes the synthesis of short RNA molecules used as primers for DNA polymerase during DNA replication.	0.683
BDP_0251	dnaQ	BDP_0251	BDP_0937	DNA polymerase III subunit delta prime subunit.	DNA polymerase III, epsilon subunit.	0.930
BDP_0251	dnaQ-2	BDP_0251	BDP_1371	DNA polymerase III subunit delta prime subunit.	dnaQ DNA polymerase III alpha subunit.	0.930
BDP_0251	dnaX	BDP_0251	BDP_0228	DNA polymerase III subunit delta prime subunit.	DNA polymerase III subunits gamma and tau.	0.927
BDP_0251	ssb	BDP_0251	BDP_0938	DNA polymerase III subunit delta prime subunit.	Single-strand DNA-binding protein.	0.619
BDP_0631	BDP_0002	BDP_0631	BDP_0002	Single-strand DNA binding 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 [...]	0.492
BDP_0631	BDP_0251	BDP_0631	BDP_0251	Single-strand DNA binding protein.	DNA polymerase III subunit delta prime subunit.	0.790
BDP_0631	BDP_1216	BDP_0631	BDP_1216	Single-strand DNA binding protein.	DNA polymerase III, delta subunit.	0.752