(19 nodes) Alpha-helical ferredoxin network (Geobacter bemidjiensis)

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:
	lutF	D-lactate dehydrogenase, CCG domain pair-containing subunit, putative. (413 aa)
	bamD	Iron-sulfur cluster-binding oxidoreductase, CCG domain pair-containing, putative benzoyl-CoA reductase electron transfer protein. (383 aa)
	Gbem_3875	Iron-sulfur cluster-binding oxidoreductase. (528 aa)
	frdB	Succinate dehydrogenase/fumarate reductase, iron-sulfur protein. (246 aa)
	Gbem_3229	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase. (661 aa)
	lutG	L-lactate dehydrogenase, DUF162 and CCG domain pair-containing iron-sulfur cluster-binding subunit, putative. (711 aa)
	Gbem_1463	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase. (662 aa)
	gltD	NADPH-dependent glutamate synthase, NADPH oxidoreductase subunit. (493 aa)
	nfnA	NADH-dependent ferredoxin:NADP+ oxidoreductase, alpha subunit. (469 aa)
	hdrE	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit E. (336 aa)
	hdrD	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit D. (314 aa)
	Gbem_2831	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase. (714 aa)
	Gbem_2087	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase. (663 aa)
	Gbem_1502	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase. (664 aa)
	Gbem_1468	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase. (656 aa)
	hdrC	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit C. (194 aa)
	larF	D-lactate dehydrogenase, CCG domain pair-containing subunit, putative. (426 aa)
	sfrB	NADPH oxidoreductase, beta subunit. (670 aa)
	Gbem_1359	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase. (658 aa)

Your Current Organism:

Geobacter bemidjiensis

NCBI taxonomy Id: 404380
Other names: G. bemidjiensis Bem, Geobacter bemidjiensis Bem, Geobacter bemidjiensis str. Bem, Geobacter bemidjiensis strain Bem

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
Gbem_1359	hdrD	Gbem_1359	Gbem_0028	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit D.	0.562
Gbem_1359	lutG	Gbem_1359	Gbem_2911	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	L-lactate dehydrogenase, DUF162 and CCG domain pair-containing iron-sulfur cluster-binding subunit, putative.	0.775
Gbem_1463	Gbem_1468	Gbem_1463	Gbem_1468	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	0.418
Gbem_1463	frdB	Gbem_1463	Gbem_3332	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Succinate dehydrogenase/fumarate reductase, iron-sulfur protein.	0.529
Gbem_1463	hdrC	Gbem_1463	Gbem_0032	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit C.	0.473
Gbem_1463	hdrD	Gbem_1463	Gbem_0028	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit D.	0.597
Gbem_1463	lutG	Gbem_1463	Gbem_2911	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	L-lactate dehydrogenase, DUF162 and CCG domain pair-containing iron-sulfur cluster-binding subunit, putative.	0.855
Gbem_1468	Gbem_1463	Gbem_1468	Gbem_1463	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	0.418
Gbem_1468	hdrD	Gbem_1468	Gbem_0028	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit D.	0.562
Gbem_1468	lutG	Gbem_1468	Gbem_2911	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	L-lactate dehydrogenase, DUF162 and CCG domain pair-containing iron-sulfur cluster-binding subunit, putative.	0.774
Gbem_1502	hdrD	Gbem_1502	Gbem_0028	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit D.	0.562
Gbem_1502	lutG	Gbem_1502	Gbem_2911	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	L-lactate dehydrogenase, DUF162 and CCG domain pair-containing iron-sulfur cluster-binding subunit, putative.	0.774
Gbem_2087	hdrD	Gbem_2087	Gbem_0028	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit D.	0.562
Gbem_2087	lutG	Gbem_2087	Gbem_2911	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	L-lactate dehydrogenase, DUF162 and CCG domain pair-containing iron-sulfur cluster-binding subunit, putative.	0.774
Gbem_2831	frdB	Gbem_2831	Gbem_3332	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Succinate dehydrogenase/fumarate reductase, iron-sulfur protein.	0.528
Gbem_2831	hdrC	Gbem_2831	Gbem_0032	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit C.	0.473
Gbem_2831	hdrD	Gbem_2831	Gbem_0028	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit D.	0.597
Gbem_2831	lutG	Gbem_2831	Gbem_2911	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	L-lactate dehydrogenase, DUF162 and CCG domain pair-containing iron-sulfur cluster-binding subunit, putative.	0.856
Gbem_3229	frdB	Gbem_3229	Gbem_3332	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Succinate dehydrogenase/fumarate reductase, iron-sulfur protein.	0.527
Gbem_3229	hdrC	Gbem_3229	Gbem_0032	Electron transfer flavoprotein-associated cytochrome b and CCG domain pair iron-sulfur cluster-binding oxidoreductase.	Heterodisulfide oxidoreductase, iron-sulfur cluster-binding subunit C.	0.473