gabD-A protein (Simkania negevensis) - 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

gabD-A

Succinate-semialdehyde dehydrogenase [NADP+]. (465 aa)

Predicted Functional Partners:

sdhA

0.936

sdhB

0.916

gabD-B

0.912

CCB88013.1

0.905

cIT

0.892

fumC

0.847

icd

0.841

sucA

0.832

mdh

0.825

CCB88279.1

0.810

Your Current Organism:

Simkania negevensis

NCBI taxonomy Id: 331113
Other names: S. negevensis Z, Simkania negevensis Z, Simkania negevensis str. Z, Simkania negevensis strain Z

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
CCB88013.1	CCB88279.1	SNE_A01360	SNE_A04020	Putative uncharacterized protein.	Putative fumarate hydratase subunit alpha.	0.950
CCB88013.1	cIT	SNE_A01360	SNE_A07020	Putative uncharacterized protein.	Citrate synthase, mitochondrial.	0.826
CCB88013.1	fumC	SNE_A01360	SNE_A14840	Putative uncharacterized protein.	Fumarate hydratase class II; Involved in the TCA cycle. Catalyzes the stereospecific interconversion of fumarate to L-malate; Belongs to the class-II fumarase/aspartase family. Fumarase subfamily.	0.967
CCB88013.1	gabD-A	SNE_A01360	SNE_A02530	Putative uncharacterized protein.	Succinate-semialdehyde dehydrogenase [NADP+].	0.905
CCB88013.1	gabD-B	SNE_A01360	SNE_A19100	Putative uncharacterized protein.	Succinate-semialdehyde dehydrogenase [NADP+].	0.905
CCB88013.1	mdh	SNE_A01360	SNE_A07010	Putative uncharacterized protein.	Malate dehydrogenase; Catalyzes the reversible oxidation of malate to oxaloacetate. Belongs to the LDH/MDH superfamily. MDH type 2 family.	0.483
CCB88013.1	sdhA	SNE_A01360	SNE_A01370	Putative uncharacterized protein.	Succinate dehydrogenase flavoprotein subunit.	0.999
CCB88013.1	sdhB	SNE_A01360	SNE_A01380	Putative uncharacterized protein.	Succinate dehydrogenase iron-sulfur subunit.	0.999
CCB88013.1	sucA	SNE_A01360	SNE_A11080	Putative uncharacterized protein.	2-oxoglutarate dehydrogenase E1 component.	0.834
CCB88279.1	CCB88013.1	SNE_A04020	SNE_A01360	Putative fumarate hydratase subunit alpha.	Putative uncharacterized protein.	0.950
CCB88279.1	cIT	SNE_A04020	SNE_A07020	Putative fumarate hydratase subunit alpha.	Citrate synthase, mitochondrial.	0.906
CCB88279.1	fumC	SNE_A04020	SNE_A14840	Putative fumarate hydratase subunit alpha.	Fumarate hydratase class II; Involved in the TCA cycle. Catalyzes the stereospecific interconversion of fumarate to L-malate; Belongs to the class-II fumarase/aspartase family. Fumarase subfamily.	0.943
CCB88279.1	gabD-A	SNE_A04020	SNE_A02530	Putative fumarate hydratase subunit alpha.	Succinate-semialdehyde dehydrogenase [NADP+].	0.810
CCB88279.1	gabD-B	SNE_A04020	SNE_A19100	Putative fumarate hydratase subunit alpha.	Succinate-semialdehyde dehydrogenase [NADP+].	0.810
CCB88279.1	mdh	SNE_A04020	SNE_A07010	Putative fumarate hydratase subunit alpha.	Malate dehydrogenase; Catalyzes the reversible oxidation of malate to oxaloacetate. Belongs to the LDH/MDH superfamily. MDH type 2 family.	0.968
CCB88279.1	sdhA	SNE_A04020	SNE_A01370	Putative fumarate hydratase subunit alpha.	Succinate dehydrogenase flavoprotein subunit.	0.970
CCB88279.1	sdhB	SNE_A04020	SNE_A01380	Putative fumarate hydratase subunit alpha.	Succinate dehydrogenase iron-sulfur subunit.	0.959
CCB88279.1	sucA	SNE_A04020	SNE_A11080	Putative fumarate hydratase subunit alpha.	2-oxoglutarate dehydrogenase E1 component.	0.440
cIT	CCB88013.1	SNE_A07020	SNE_A01360	Citrate synthase, mitochondrial.	Putative uncharacterized protein.	0.826
cIT	CCB88279.1	SNE_A07020	SNE_A04020	Citrate synthase, mitochondrial.	Putative fumarate hydratase subunit alpha.	0.906