porB protein (Methanobrevibacter filiformis)

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.

Knowledge-based Evidence

from curated databases

textmining

Assay-based Predictions

experimentally determined

co-expression

Genomic Predictions

gene neighborhood

gene co-occurrence

gene fusions

Your Input:

Neighborhood

Gene Fusion

Co-occurrence

Co-expression

Experiments

Databases

Textmining

[Homology]

Score

porB

Pyruvate synthase subunit PorB. (288 aa)

Predicted Functional Partners:

porD

0.999

porA

0.999

cooF_2

0.999

padE_2

0.998

cooF_3

0.998

korA_1

0.989

sucC

0.947

sucD

0.947

korB_1

0.945

cfiA

0.944

Your Current Organism:

Methanobrevibacter filiformis

NCBI taxonomy Id: 55758
Other names: DSM 11501, M. filiformis, strain RFM-3

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
cfiA	cooF_2	MBFIL_19560	MBFIL_18900	2-oxoglutarate carboxylase large subunit.	Iron-sulfur protein.	0.508
cfiA	cooF_3	MBFIL_19560	MBFIL_18910	2-oxoglutarate carboxylase large subunit.	Iron-sulfur protein.	0.470
cfiA	korA_1	MBFIL_19560	MBFIL_02660	2-oxoglutarate carboxylase large subunit.	2-oxoglutarate oxidoreductase subunit KorA.	0.939
cfiA	korB_1	MBFIL_19560	MBFIL_02650	2-oxoglutarate carboxylase large subunit.	2-oxoglutarate oxidoreductase subunit KorB.	0.947
cfiA	padE_2	MBFIL_19560	MBFIL_18860	2-oxoglutarate carboxylase large subunit.	NADH-dependent phenylglyoxylate dehydrogenase subunit gamma.	0.937
cfiA	porA	MBFIL_19560	MBFIL_18880	2-oxoglutarate carboxylase large subunit.	Pyruvate synthase subunit PorA.	0.939
cfiA	porB	MBFIL_19560	MBFIL_18890	2-oxoglutarate carboxylase large subunit.	Pyruvate synthase subunit PorB.	0.944
cfiA	porD	MBFIL_19560	MBFIL_18870	2-oxoglutarate carboxylase large subunit.	Pyruvate synthase subunit PorD.	0.937
cfiA	sucC	MBFIL_19560	MBFIL_08520	2-oxoglutarate carboxylase large subunit.	succinyl-CoA ligase [ADP-forming] subunit beta; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The beta subunit provides nucleotide specificity of the enzyme and binds the substrate succinate, while the binding sites for coenzyme A and phosphate are found in the alpha subunit.	0.654
cfiA	sucD	MBFIL_19560	MBFIL_09410	2-oxoglutarate carboxylase large subunit.	succinyl-CoA ligase [ADP-forming] subunit alpha; Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of either ATP or GTP and thus represents the only step of substrate-level phosphorylation in the TCA. The alpha subunit of the enzyme binds the substrates coenzyme A and phosphate, while succinate binding and nucleotide specificity is provided by the beta subunit.	0.799
cooF_2	cfiA	MBFIL_18900	MBFIL_19560	Iron-sulfur protein.	2-oxoglutarate carboxylase large subunit.	0.508
cooF_2	cooF_3	MBFIL_18900	MBFIL_18910	Iron-sulfur protein.	Iron-sulfur protein.	0.999
cooF_2	padE_2	MBFIL_18900	MBFIL_18860	Iron-sulfur protein.	NADH-dependent phenylglyoxylate dehydrogenase subunit gamma.	0.973
cooF_2	porA	MBFIL_18900	MBFIL_18880	Iron-sulfur protein.	Pyruvate synthase subunit PorA.	0.999
cooF_2	porB	MBFIL_18900	MBFIL_18890	Iron-sulfur protein.	Pyruvate synthase subunit PorB.	0.999
cooF_2	porD	MBFIL_18900	MBFIL_18870	Iron-sulfur protein.	Pyruvate synthase subunit PorD.	0.987
cooF_3	cfiA	MBFIL_18910	MBFIL_19560	Iron-sulfur protein.	2-oxoglutarate carboxylase large subunit.	0.470
cooF_3	cooF_2	MBFIL_18910	MBFIL_18900	Iron-sulfur protein.	Iron-sulfur protein.	0.999
cooF_3	padE_2	MBFIL_18910	MBFIL_18860	Iron-sulfur protein.	NADH-dependent phenylglyoxylate dehydrogenase subunit gamma.	0.929
cooF_3	porA	MBFIL_18910	MBFIL_18880	Iron-sulfur protein.	Pyruvate synthase subunit PorA.	0.998