(7 nodes) L-lysine catabolic process to acetyl-CoA via saccharopine network (Ciona intestinalis)

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:
	LOC100177655	Kynurenine/alpha-aminoadipate aminotransferase, mitochondrial-like isoform X4. (432 aa)
	F6PK80_CIOIN	Aminotran_1_2 domain-containing protein. (432 aa)
	L7N0S9_CIOIN	Aminotran_1_2 domain-containing protein. (219 aa)
	F7AZV0_CIOIN	Lipoyl-binding domain-containing protein. (391 aa)
	F6ZU97_CIOIN	Uncharacterized protein. (460 aa)
	H2XXG5_CIOIN	AlaDh_PNT_N domain-containing protein. (215 aa)
	H2XZC9_CIOIN	Aminotran_1_2 domain-containing protein. (425 aa)

Your Current Organism:

Ciona intestinalis

NCBI taxonomy Id: 7719
Other names: Ascidia intestinalis, C. intestinalis, sea vase, vase tunicate, yellow sea squirt

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
F6PK80_CIOIN	F7AZV0_CIOIN	ENSCINP00000006285	ENSCINP00000014023	Aminotran_1_2 domain-containing protein.	Lipoyl-binding domain-containing protein.	0.908
F6PK80_CIOIN	L7N0S9_CIOIN	ENSCINP00000006285	ENSCINP00000013525	Aminotran_1_2 domain-containing protein.	Aminotran_1_2 domain-containing protein.	0.906
F6ZU97_CIOIN	H2XXG5_CIOIN	ENSCINP00000019576	ENSCINP00000034349	Uncharacterized protein.	AlaDh_PNT_N domain-containing protein.	0.949
F7AZV0_CIOIN	F6PK80_CIOIN	ENSCINP00000014023	ENSCINP00000006285	Lipoyl-binding domain-containing protein.	Aminotran_1_2 domain-containing protein.	0.908
F7AZV0_CIOIN	L7N0S9_CIOIN	ENSCINP00000014023	ENSCINP00000013525	Lipoyl-binding domain-containing protein.	Aminotran_1_2 domain-containing protein.	0.908
H2XXG5_CIOIN	F6ZU97_CIOIN	ENSCINP00000034349	ENSCINP00000019576	AlaDh_PNT_N domain-containing protein.	Uncharacterized protein.	0.949
H2XZC9_CIOIN	L7N0S9_CIOIN	ENSCINP00000035013	ENSCINP00000013525	Aminotran_1_2 domain-containing protein.	Aminotran_1_2 domain-containing protein.	0.445
L7N0S9_CIOIN	F6PK80_CIOIN	ENSCINP00000013525	ENSCINP00000006285	Aminotran_1_2 domain-containing protein.	Aminotran_1_2 domain-containing protein.	0.906
L7N0S9_CIOIN	F7AZV0_CIOIN	ENSCINP00000013525	ENSCINP00000014023	Aminotran_1_2 domain-containing protein.	Lipoyl-binding domain-containing protein.	0.908
L7N0S9_CIOIN	H2XZC9_CIOIN	ENSCINP00000013525	ENSCINP00000035013	Aminotran_1_2 domain-containing protein.	Aminotran_1_2 domain-containing protein.	0.445