(28 nodes) O-Antigen nucleotide sugar biosynthesis, and Nucleotide-diphospho-sugar transferase network (Geosporobacter ferrireducens)

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:
	AOT68592.1	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (297 aa)
	AOT68593.1	UDP-glucose 6-dehydrogenase; Derived by automated computational analysis using gene prediction method: GeneMarkS+. (468 aa)
	AOT68882.1	Spore coat protein; Catalyzes the reduction of dTDP-6-deoxy-L-lyxo-4-hexulose to yield dTDP-L-rhamnose. (288 aa)
	AOT69318.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (309 aa)
	AOT69319.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (304 aa)
	AOT69324.1	Spore coat protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (250 aa)
	AOT69325.1	dTDP-4-dehydrorhamnose reductase; Catalyzes the reduction of dTDP-6-deoxy-L-lyxo-4-hexulose to yield dTDP-L-rhamnose. (292 aa)
	AOT69326.1	dTDP-glucose 4,6-dehydratase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the NAD(P)-dependent epimerase/dehydratase family. dTDP-glucose dehydratase subfamily. (341 aa)
	AOT69327.1	dTDP-4-dehydrorhamnose 3,5-epimerase; Catalyzes the epimerization of the C3' and C5'positions of dTDP-6-deoxy-D-xylo-4-hexulose, forming dTDP-6-deoxy-L-lyxo-4-hexulose. Belongs to the dTDP-4-dehydrorhamnose 3,5-epimerase family. (188 aa)
	AOT69328.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+. (501 aa)
	AOT69335.1	NAD-dependent dehydratase; Derived by automated computational analysis using gene prediction method: Protein Homology. (315 aa)
	AOT69899.1	Nucleotidyl transferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (822 aa)
	AOT70020.1	Glucose-1-phosphate thymidylyltransferase; Catalyzes the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis. Belongs to the glucose-1-phosphate thymidylyltransferase family. (285 aa)
	AOT70021.1	dTDP-glucose 4,6-dehydratase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the NAD(P)-dependent epimerase/dehydratase family. dTDP-glucose dehydratase subfamily. (359 aa)
	AOT70055.1	UDP-glucose 4-epimerase; Derived by automated computational analysis using gene prediction method: Protein Homology. (302 aa)
	Gferi_11290	Hypothetical protein; Internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology. (302 aa)
	AOT70125.1	UDP-glucose 6-dehydrogenase; Catalyzes the formation of UDP-glucuronate from UDP-glucose; Derived by automated computational analysis using gene prediction method: Protein Homology. (389 aa)
	AOT70382.1	Mannose-6-phosphate isomerase, class I; Derived by automated computational analysis using gene prediction method: Protein Homology. (335 aa)
	AOT70576.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (316 aa)
	AOT70577.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (426 aa)
	AOT71531.1	Epimerase; Derived by automated computational analysis using gene prediction method: Protein Homology. (337 aa)
	AOT71532.1	UDP-glucose 6-dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology. (440 aa)
	AOT71533.1	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (291 aa)
	AOT72458.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (268 aa)
	AOT72639.1	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (451 aa)
	AOT72849.1	Glucose-1-phosphate cytidylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (256 aa)
	AOT72850.1	Sugar dehydratase; Derived by automated computational analysis using gene prediction method: Protein Homology. (325 aa)
	AOT72886.1	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology. (304 aa)

Your Current Organism:

Geosporobacter ferrireducens

NCBI taxonomy Id: 1424294
Other names: G. ferrireducens, Geosporobacter sp. IRF9, JCM 19987, KCTC 15395, strain IRF9

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
AOT68592.1	AOT68593.1	Gferi_02660	Gferi_02665	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	UDP-glucose 6-dehydrogenase; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.987
AOT68592.1	AOT69324.1	Gferi_02660	Gferi_06910	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Spore coat protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.921
AOT68592.1	AOT69335.1	Gferi_02660	Gferi_06965	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	NAD-dependent dehydratase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.915
AOT68592.1	AOT70020.1	Gferi_02660	Gferi_10730	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Glucose-1-phosphate thymidylyltransferase; Catalyzes the formation of dTDP-glucose, from dTTP and glucose 1-phosphate, as well as its pyrophosphorolysis. Belongs to the glucose-1-phosphate thymidylyltransferase family.	0.916
AOT68592.1	AOT70055.1	Gferi_02660	Gferi_10930	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	UDP-glucose 4-epimerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.917
AOT68592.1	AOT70125.1	Gferi_02660	Gferi_11305	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	UDP-glucose 6-dehydrogenase; Catalyzes the formation of UDP-glucuronate from UDP-glucose; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.946
AOT68592.1	AOT70576.1	Gferi_02660	Gferi_13940	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.912
AOT68592.1	AOT71531.1	Gferi_02660	Gferi_19540	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Epimerase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.825
AOT68592.1	AOT71532.1	Gferi_02660	Gferi_19545	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	UDP-glucose 6-dehydrogenase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.946
AOT68592.1	AOT71533.1	Gferi_02660	Gferi_19550	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.803
AOT68592.1	AOT72639.1	Gferi_02660	Gferi_25635	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.931
AOT68592.1	AOT72849.1	Gferi_02660	Gferi_26800	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Glucose-1-phosphate cytidylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.913
AOT68592.1	AOT72850.1	Gferi_02660	Gferi_26805	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Sugar dehydratase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.833
AOT68592.1	AOT72886.1	Gferi_02660	Gferi_27015	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.803
AOT68592.1	Gferi_11290	Gferi_02660	Gferi_11290	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.803
AOT68593.1	AOT68592.1	Gferi_02665	Gferi_02660	UDP-glucose 6-dehydrogenase; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	UTP--glucose-1-phosphate uridylyltransferase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.987
AOT68593.1	AOT69318.1	Gferi_02665	Gferi_06880	UDP-glucose 6-dehydrogenase; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.413
AOT68593.1	AOT69319.1	Gferi_02665	Gferi_06885	UDP-glucose 6-dehydrogenase; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.413
AOT68593.1	AOT69324.1	Gferi_02665	Gferi_06910	UDP-glucose 6-dehydrogenase; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	Spore coat protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.667
AOT68593.1	AOT69326.1	Gferi_02665	Gferi_06920	UDP-glucose 6-dehydrogenase; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	dTDP-glucose 4,6-dehydratase; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the NAD(P)-dependent epimerase/dehydratase family. dTDP-glucose dehydratase subfamily.	0.649