garK protein (Clostridium thermoalcaliphilum)

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

garK

Glycerate 2-kinase; Belongs to the glycerate kinase type-1 family. (374 aa)

Predicted Functional Partners:

gpmI

0.720

tadA_2

0.700

pagL

0.596

pyk

0.590

pspA_1

0.555

pspA_2

0.555

malX_1

0.485

birA

0.457

adhE

0.440

fruA_2

0.409

Your Current Organism:

Clostridium thermoalcaliphilum

NCBI taxonomy Id: 29349
Other names: ATCC 51508, CIP 105528, DSM 7309, [. thermoalcaliphilum, [Clostridium] thermoalcaliphilum, strain JW/YL23-2

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 proteins in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
adhE	birA	CLOTH_11210	CLOTH_19460	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	Bifunctional ligase/repressor BirA; Acts both as a biotin--[acetyl-CoA-carboxylase] ligase and a repressor; Belongs to the biotin--protein ligase family.	0.641
adhE	fruA_2	CLOTH_11210	CLOTH_01010	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	PTS system fructose-specific EIIBC component.	0.681
adhE	garK	CLOTH_11210	CLOTH_05220	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	Glycerate 2-kinase; Belongs to the glycerate kinase type-1 family.	0.440
adhE	gpmI	CLOTH_11210	CLOTH_08390	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	2,3-bisphosphoglycerate-independent phosphoglycerate mutase; Catalyzes the interconversion of 2-phosphoglycerate and 3- phosphoglycerate.	0.674
adhE	malX_1	CLOTH_11210	CLOTH_05240	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	PTS system maltose- and glucose-specific EIICB component.	0.854
adhE	pspA_1	CLOTH_11210	CLOTH_04860	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	Phosphoserine phosphatase 1; Belongs to the phosphoglycerate mutase family.	0.613
adhE	pspA_2	CLOTH_11210	CLOTH_09660	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	Phosphoserine phosphatase 1.	0.613
adhE	pyk	CLOTH_11210	CLOTH_18010	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	Pyruvate kinase; Belongs to the pyruvate kinase family.	0.966
adhE	tadA_2	CLOTH_11210	CLOTH_20020	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	tRNA-specific adenosine deaminase; Catalyzes the deamination of adenosine to inosine at the wobble position 34 of tRNA(Arg2); Belongs to the cytidine and deoxycytidylate deaminase family.	0.495
birA	adhE	CLOTH_19460	CLOTH_11210	Bifunctional ligase/repressor BirA; Acts both as a biotin--[acetyl-CoA-carboxylase] ligase and a repressor; Belongs to the biotin--protein ligase family.	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	0.641
birA	garK	CLOTH_19460	CLOTH_05220	Bifunctional ligase/repressor BirA; Acts both as a biotin--[acetyl-CoA-carboxylase] ligase and a repressor; Belongs to the biotin--protein ligase family.	Glycerate 2-kinase; Belongs to the glycerate kinase type-1 family.	0.457
birA	pyk	CLOTH_19460	CLOTH_18010	Bifunctional ligase/repressor BirA; Acts both as a biotin--[acetyl-CoA-carboxylase] ligase and a repressor; Belongs to the biotin--protein ligase family.	Pyruvate kinase; Belongs to the pyruvate kinase family.	0.458
birA	tadA_2	CLOTH_19460	CLOTH_20020	Bifunctional ligase/repressor BirA; Acts both as a biotin--[acetyl-CoA-carboxylase] ligase and a repressor; Belongs to the biotin--protein ligase family.	tRNA-specific adenosine deaminase; Catalyzes the deamination of adenosine to inosine at the wobble position 34 of tRNA(Arg2); Belongs to the cytidine and deoxycytidylate deaminase family.	0.968
fruA_2	adhE	CLOTH_01010	CLOTH_11210	PTS system fructose-specific EIIBC component.	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	0.681
fruA_2	garK	CLOTH_01010	CLOTH_05220	PTS system fructose-specific EIIBC component.	Glycerate 2-kinase; Belongs to the glycerate kinase type-1 family.	0.409
fruA_2	malX_1	CLOTH_01010	CLOTH_05240	PTS system fructose-specific EIIBC component.	PTS system maltose- and glucose-specific EIICB component.	0.820
fruA_2	pyk	CLOTH_01010	CLOTH_18010	PTS system fructose-specific EIIBC component.	Pyruvate kinase; Belongs to the pyruvate kinase family.	0.675
garK	adhE	CLOTH_05220	CLOTH_11210	Glycerate 2-kinase; Belongs to the glycerate kinase type-1 family.	Aldehyde-alcohol dehydrogenase; In the C-terminal section; belongs to the iron-containing alcohol dehydrogenase family.	0.440
garK	birA	CLOTH_05220	CLOTH_19460	Glycerate 2-kinase; Belongs to the glycerate kinase type-1 family.	Bifunctional ligase/repressor BirA; Acts both as a biotin--[acetyl-CoA-carboxylase] ligase and a repressor; Belongs to the biotin--protein ligase family.	0.457
garK	fruA_2	CLOTH_05220	CLOTH_01010	Glycerate 2-kinase; Belongs to the glycerate kinase type-1 family.	PTS system fructose-specific EIIBC component.	0.409