CSIRO_2181 protein (Bradyrhizobiaceae bacterium SG6C)

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

CSIRO_2181

Beta-ureidopropionase. (422 aa)

Predicted Functional Partners:

CSIRO_1790

0.901

pyrD

0.732

CSIRO_0270

0.696

CSIRO_3947

0.687

CSIRO_3351

0.677

CSIRO_1249

0.674

CSIRO_3945

0.668

CSIRO_2008

0.660

nikR

0.644

CSIRO_2101

0.619

Your Current Organism:

Bradyrhizobiaceae bacterium SG6C

NCBI taxonomy Id: 709797
Other names: B. bacterium SG-6C, Bradyrhizobiaceae bacterium SG-6C

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
CSIRO_0270	CSIRO_1249	CSIRO_0270	CSIRO_1249	Glutamate synthase (NADPH) small chain.	Benzoyl-CoA oxygenase.	0.777
CSIRO_0270	CSIRO_1790	CSIRO_0270	CSIRO_1790	Glutamate synthase (NADPH) small chain.	Dihydroorotase.	0.693
CSIRO_0270	CSIRO_2101	CSIRO_0270	CSIRO_2101	Glutamate synthase (NADPH) small chain.	Aldehyde dehydrogenase.	0.658
CSIRO_0270	CSIRO_2181	CSIRO_0270	CSIRO_2181	Glutamate synthase (NADPH) small chain.	Beta-ureidopropionase.	0.696
CSIRO_0270	CSIRO_3351	CSIRO_0270	CSIRO_3351	Glutamate synthase (NADPH) small chain.	Dihydroorotase.	0.624
CSIRO_0270	CSIRO_3947	CSIRO_0270	CSIRO_3947	Glutamate synthase (NADPH) small chain.	Fe-S protein.	0.751
CSIRO_0270	pyrD	CSIRO_0270	CSIRO_1290	Glutamate synthase (NADPH) small chain.	Dihydroorotate dehydrogenase; Catalyzes the conversion of dihydroorotate to orotate with quinone as electron acceptor; Belongs to the dihydroorotate dehydrogenase family. Type 2 subfamily.	0.832
CSIRO_1249	CSIRO_0270	CSIRO_1249	CSIRO_0270	Benzoyl-CoA oxygenase.	Glutamate synthase (NADPH) small chain.	0.777
CSIRO_1249	CSIRO_1790	CSIRO_1249	CSIRO_1790	Benzoyl-CoA oxygenase.	Dihydroorotase.	0.565
CSIRO_1249	CSIRO_2101	CSIRO_1249	CSIRO_2101	Benzoyl-CoA oxygenase.	Aldehyde dehydrogenase.	0.712
CSIRO_1249	CSIRO_2181	CSIRO_1249	CSIRO_2181	Benzoyl-CoA oxygenase.	Beta-ureidopropionase.	0.674
CSIRO_1249	CSIRO_3351	CSIRO_1249	CSIRO_3351	Benzoyl-CoA oxygenase.	Dihydroorotase.	0.563
CSIRO_1249	CSIRO_3947	CSIRO_1249	CSIRO_3947	Benzoyl-CoA oxygenase.	Fe-S protein.	0.791
CSIRO_1249	pyrD	CSIRO_1249	CSIRO_1290	Benzoyl-CoA oxygenase.	Dihydroorotate dehydrogenase; Catalyzes the conversion of dihydroorotate to orotate with quinone as electron acceptor; Belongs to the dihydroorotate dehydrogenase family. Type 2 subfamily.	0.670
CSIRO_1790	CSIRO_0270	CSIRO_1790	CSIRO_0270	Dihydroorotase.	Glutamate synthase (NADPH) small chain.	0.693
CSIRO_1790	CSIRO_1249	CSIRO_1790	CSIRO_1249	Dihydroorotase.	Benzoyl-CoA oxygenase.	0.565
CSIRO_1790	CSIRO_2008	CSIRO_1790	CSIRO_2008	Dihydroorotase.	Polysaccharide deacetylase.	0.605
CSIRO_1790	CSIRO_2181	CSIRO_1790	CSIRO_2181	Dihydroorotase.	Beta-ureidopropionase.	0.901
CSIRO_1790	CSIRO_3351	CSIRO_1790	CSIRO_3351	Dihydroorotase.	Dihydroorotase.	0.713
CSIRO_1790	pyrD	CSIRO_1790	CSIRO_1290	Dihydroorotase.	Dihydroorotate dehydrogenase; Catalyzes the conversion of dihydroorotate to orotate with quinone as electron acceptor; Belongs to the dihydroorotate dehydrogenase family. Type 2 subfamily.	0.955