(13 nodes) Starch and sucrose metabolism network (Syntrophus aciditrophicus)

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:
	SYN_00295	Glycogen debranching enzyme/alpha-amylase. (1423 aa)
	SYN_00298	Glycogen phosphorylase. (710 aa)
	SYN_00877	Glycogen synthase. (511 aa)
	SYN_00879	Glycogen synthase /glycogen phosphorylase; Bifunctional. (1418 aa)
	SYN_00880	Alpha-amylase. (395 aa)
	SYN_00881	4-alpha-glucanotransferase. (432 aa)
	SYN_01069	4-alpha-glucanotransferase. (501 aa)
	SYN_01331	Glycogen phosphorylase. (850 aa)
	SYN_01343	Phosphoglucomutase. (562 aa)
	SYN_02257	1,4-alpha-glucan branching enzyme. (662 aa)
	SYN_02761	Glycogen phosphorylase. (848 aa)
	SYN_02854	Alpha-amylase. (901 aa)
	SYN_02880	Glycogen phosphorylase; Phosphorylase is an important allosteric enzyme in carbohydrate metabolism. Enzymes from different sources differ in their regulatory mechanisms and in their natural substrates. However, all known phosphorylases share catalytic and structural properties. (835 aa)

Your Current Organism:

Syntrophus aciditrophicus

NCBI taxonomy Id: 56780
Other names: S. aciditrophicus SB, Syntrophus aciditrophicus SB, Syntrophus aciditrophicus str. SB, Syntrophus aciditrophicus strain SB

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 annotation	node2 annotation	score
SYN_00295	SYN_00298	Glycogen debranching enzyme/alpha-amylase.	Glycogen phosphorylase.	0.853
SYN_00295	SYN_00877	Glycogen debranching enzyme/alpha-amylase.	Glycogen synthase.	0.856
SYN_00295	SYN_00879	Glycogen debranching enzyme/alpha-amylase.	Glycogen synthase /glycogen phosphorylase; Bifunctional.	0.941
SYN_00295	SYN_01069	Glycogen debranching enzyme/alpha-amylase.	4-alpha-glucanotransferase.	0.494
SYN_00295	SYN_01331	Glycogen debranching enzyme/alpha-amylase.	Glycogen phosphorylase.	0.820
SYN_00295	SYN_01343	Glycogen debranching enzyme/alpha-amylase.	Phosphoglucomutase.	0.814
SYN_00295	SYN_02257	Glycogen debranching enzyme/alpha-amylase.	1,4-alpha-glucan branching enzyme.	0.981
SYN_00295	SYN_02761	Glycogen debranching enzyme/alpha-amylase.	Glycogen phosphorylase.	0.820
SYN_00295	SYN_02854	Glycogen debranching enzyme/alpha-amylase.	Alpha-amylase.	0.855
SYN_00295	SYN_02880	Glycogen debranching enzyme/alpha-amylase.	Glycogen phosphorylase; Phosphorylase is an important allosteric enzyme in carbohydrate metabolism. Enzymes from different sources differ in their regulatory mechanisms and in their natural substrates. However, all known phosphorylases share catalytic and structural properties.	0.820
SYN_00298	SYN_00295	Glycogen phosphorylase.	Glycogen debranching enzyme/alpha-amylase.	0.853
SYN_00298	SYN_00877	Glycogen phosphorylase.	Glycogen synthase.	0.666
SYN_00298	SYN_00880	Glycogen phosphorylase.	Alpha-amylase.	0.927
SYN_00298	SYN_01069	Glycogen phosphorylase.	4-alpha-glucanotransferase.	0.728
SYN_00298	SYN_01343	Glycogen phosphorylase.	Phosphoglucomutase.	0.963
SYN_00298	SYN_02257	Glycogen phosphorylase.	1,4-alpha-glucan branching enzyme.	0.975
SYN_00298	SYN_02854	Glycogen phosphorylase.	Alpha-amylase.	0.983
SYN_00877	SYN_00295	Glycogen synthase.	Glycogen debranching enzyme/alpha-amylase.	0.856
SYN_00877	SYN_00298	Glycogen synthase.	Glycogen phosphorylase.	0.666
SYN_00877	SYN_00879	Glycogen synthase.	Glycogen synthase /glycogen phosphorylase; Bifunctional.	0.966