(6 nodes) Citrate cycle (TCA cycle) network (Streptococcus iniae)

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:
	APD31640.1	Iron ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (471 aa)
	lpdA	Dihydrolipoyl dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology. (584 aa)
	APD31639.1	Alpha-ketoacid dehydrogenase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology. (332 aa)
	nifJ	Pyruvate:ferredoxin (flavodoxin) oxidoreductase; Derived by automated computational analysis using gene prediction method: Protein Homology. (1211 aa)
	APD31296.1	Phosphoenolpyruvate carboxykinase; Derived by automated computational analysis using gene prediction method: Protein Homology. (546 aa)
	APD31638.1	Pyruvate dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology. (322 aa)

Your Current Organism:

Streptococcus iniae

NCBI taxonomy Id: 1346
Other names: ATCC 29178, CCUG 27303, CIP 102508, DSM 20576, LMG 14520, LMG:14520, S. iniae, Streptococcus shiloi, strain PW

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
APD31296.1	APD31638.1	BMF34_01985	BMF34_03890	Phosphoenolpyruvate carboxykinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Pyruvate dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.641
APD31296.1	APD31639.1	BMF34_01985	BMF34_03895	Phosphoenolpyruvate carboxykinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Alpha-ketoacid dehydrogenase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.661
APD31296.1	APD31640.1	BMF34_01985	BMF34_03900	Phosphoenolpyruvate carboxykinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Iron ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.742
APD31296.1	lpdA	BMF34_01985	BMF34_03905	Phosphoenolpyruvate carboxykinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Dihydrolipoyl dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.803
APD31296.1	nifJ	BMF34_01985	BMF34_01350	Phosphoenolpyruvate carboxykinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Pyruvate:ferredoxin (flavodoxin) oxidoreductase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.915
APD31638.1	APD31296.1	BMF34_03890	BMF34_01985	Pyruvate dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Phosphoenolpyruvate carboxykinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.641
APD31638.1	APD31639.1	BMF34_03890	BMF34_03895	Pyruvate dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Alpha-ketoacid dehydrogenase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APD31638.1	APD31640.1	BMF34_03890	BMF34_03900	Pyruvate dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Iron ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.998
APD31638.1	lpdA	BMF34_03890	BMF34_03905	Pyruvate dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Dihydrolipoyl dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APD31638.1	nifJ	BMF34_03890	BMF34_01350	Pyruvate dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Pyruvate:ferredoxin (flavodoxin) oxidoreductase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.958
APD31639.1	APD31296.1	BMF34_03895	BMF34_01985	Alpha-ketoacid dehydrogenase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	Phosphoenolpyruvate carboxykinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.661
APD31639.1	APD31638.1	BMF34_03895	BMF34_03890	Alpha-ketoacid dehydrogenase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	Pyruvate dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APD31639.1	APD31640.1	BMF34_03895	BMF34_03900	Alpha-ketoacid dehydrogenase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	Iron ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APD31639.1	lpdA	BMF34_03895	BMF34_03905	Alpha-ketoacid dehydrogenase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	Dihydrolipoyl dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APD31639.1	nifJ	BMF34_03895	BMF34_01350	Alpha-ketoacid dehydrogenase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	Pyruvate:ferredoxin (flavodoxin) oxidoreductase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.915
APD31640.1	APD31296.1	BMF34_03900	BMF34_01985	Iron ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Phosphoenolpyruvate carboxykinase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.742
APD31640.1	APD31638.1	BMF34_03900	BMF34_03890	Iron ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Pyruvate dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.998
APD31640.1	APD31639.1	BMF34_03900	BMF34_03895	Iron ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Alpha-ketoacid dehydrogenase subunit beta; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.999
APD31640.1	lpdA	BMF34_03900	BMF34_03905	Iron ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Dihydrolipoyl dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.989
APD31640.1	nifJ	BMF34_03900	BMF34_01350	Iron ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Pyruvate:ferredoxin (flavodoxin) oxidoreductase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.893