gyrB3 protein (Dokdonia sp. MED134) - 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.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

gyrB3

Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit. (647 aa)

Predicted Functional Partners:

gyrA1

0.998

gyrA3

0.968

EAQ38328.2

0.783

pdxA

0.774

dnaN1

0.758

polA

0.718

topI

0.664

recF

0.663

dnaA

0.655

dnaJ

0.643

Your Current Organism:

Dokdonia sp. MED134

NCBI taxonomy Id: 313590
Other names: Cellulophaga sp. MED134, D. sp. MED134, Dokdonia donghaensis MED134

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
EAQ38328.2	dnaJ	MED134_03414	MED134_13406	Hsp70 protein; Molecular chaperone.	DnaJ-class molecular chaperone with C-terminal Zn finger domain.	0.983
EAQ38328.2	gyrA1	MED134_03414	MED134_05364	Hsp70 protein; Molecular chaperone.	Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit.	0.647
EAQ38328.2	gyrA3	MED134_03414	MED134_04754	Hsp70 protein; Molecular chaperone.	Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit.	0.443
EAQ38328.2	gyrB3	MED134_03414	MED134_12981	Hsp70 protein; Molecular chaperone.	Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit.	0.783
EAQ38328.2	polA	MED134_03414	MED134_00555	Hsp70 protein; Molecular chaperone.	DNA polymerase I - 3'-5' exonuclease and polymerase domains.	0.488
dnaA	dnaN1	MED134_13946	MED134_04199	Chromosomal replication initiator protein DnaA; ATPase involved in DNA replication initiation.	DNA polymerase sliding clamp subunit (PCNA homolog).	0.976
dnaA	gyrA1	MED134_13946	MED134_05364	Chromosomal replication initiator protein DnaA; ATPase involved in DNA replication initiation.	Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit.	0.532
dnaA	gyrB3	MED134_13946	MED134_12981	Chromosomal replication initiator protein DnaA; ATPase involved in DNA replication initiation.	Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit.	0.655
dnaA	polA	MED134_13946	MED134_00555	Chromosomal replication initiator protein DnaA; ATPase involved in DNA replication initiation.	DNA polymerase I - 3'-5' exonuclease and polymerase domains.	0.479
dnaA	recF	MED134_13946	MED134_01885	Chromosomal replication initiator protein DnaA; ATPase involved in DNA replication initiation.	Recombinational DNA repair ATPase (RecF pathway).	0.880
dnaJ	EAQ38328.2	MED134_13406	MED134_03414	DnaJ-class molecular chaperone with C-terminal Zn finger domain.	Hsp70 protein; Molecular chaperone.	0.983
dnaJ	gyrA1	MED134_13406	MED134_05364	DnaJ-class molecular chaperone with C-terminal Zn finger domain.	Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit.	0.537
dnaJ	gyrB3	MED134_13406	MED134_12981	DnaJ-class molecular chaperone with C-terminal Zn finger domain.	Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit.	0.643
dnaJ	polA	MED134_13406	MED134_00555	DnaJ-class molecular chaperone with C-terminal Zn finger domain.	DNA polymerase I - 3'-5' exonuclease and polymerase domains.	0.425
dnaN1	dnaA	MED134_04199	MED134_13946	DNA polymerase sliding clamp subunit (PCNA homolog).	Chromosomal replication initiator protein DnaA; ATPase involved in DNA replication initiation.	0.976
dnaN1	gyrB3	MED134_04199	MED134_12981	DNA polymerase sliding clamp subunit (PCNA homolog).	Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), B subunit.	0.758
dnaN1	polA	MED134_04199	MED134_00555	DNA polymerase sliding clamp subunit (PCNA homolog).	DNA polymerase I - 3'-5' exonuclease and polymerase domains.	0.999
dnaN1	recF	MED134_04199	MED134_01885	DNA polymerase sliding clamp subunit (PCNA homolog).	Recombinational DNA repair ATPase (RecF pathway).	0.848
gyrA1	EAQ38328.2	MED134_05364	MED134_03414	Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit.	Hsp70 protein; Molecular chaperone.	0.647
gyrA1	dnaA	MED134_05364	MED134_13946	Type IIA topoisomerase (DNA gyrase/topo II, topoisomerase IV), A subunit.	Chromosomal replication initiator protein DnaA; ATPase involved in DNA replication initiation.	0.532