(4 nodes) D-Glutamine and D-glutamate metabolism network (Branchiostoma floridae)

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:
	C3XQA6_BRAFL	Glutamate dehydrogenase; Belongs to the Glu/Leu/Phe/Val dehydrogenases family. (507 aa)
	C3XU11_BRAFL	DUF4392 domain-containing protein. (615 aa)
	C3ZCM2_BRAFL	DUF4392 domain-containing protein. (452 aa)
	C3ZFA4_BRAFL	ANK_REP_REGION domain-containing protein. (467 aa)

Your Current Organism:

Branchiostoma floridae

NCBI taxonomy Id: 7739
Other names: Amphioxus floridae, B. floridae, Florida lancelet

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
C3XQA6_BRAFL	C3ZFA4_BRAFL	C3XQA6	C3ZFA4	Glutamate dehydrogenase; Belongs to the Glu/Leu/Phe/Val dehydrogenases family.	ANK_REP_REGION domain-containing protein.	0.962
C3XU11_BRAFL	C3ZCM2_BRAFL	C3XU11	C3ZCM2	DUF4392 domain-containing protein.	DUF4392 domain-containing protein.	0.903
C3XU11_BRAFL	C3ZFA4_BRAFL	C3XU11	C3ZFA4	DUF4392 domain-containing protein.	ANK_REP_REGION domain-containing protein.	0.900
C3ZCM2_BRAFL	C3XU11_BRAFL	C3ZCM2	C3XU11	DUF4392 domain-containing protein.	DUF4392 domain-containing protein.	0.903
C3ZCM2_BRAFL	C3ZFA4_BRAFL	C3ZCM2	C3ZFA4	DUF4392 domain-containing protein.	ANK_REP_REGION domain-containing protein.	0.900
C3ZFA4_BRAFL	C3XQA6_BRAFL	C3ZFA4	C3XQA6	ANK_REP_REGION domain-containing protein.	Glutamate dehydrogenase; Belongs to the Glu/Leu/Phe/Val dehydrogenases family.	0.962
C3ZFA4_BRAFL	C3XU11_BRAFL	C3ZFA4	C3XU11	ANK_REP_REGION domain-containing protein.	DUF4392 domain-containing protein.	0.900
C3ZFA4_BRAFL	C3ZCM2_BRAFL	C3ZFA4	C3ZCM2	ANK_REP_REGION domain-containing protein.	DUF4392 domain-containing protein.	0.900