(12 nodes) Positive regulation of pathway-restricted SMAD protein phosphorylation 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:
	Bmp2/4	TGFb_propeptide domain-containing protein. (376 aa)
	Tgfbr-iib	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily. (567 aa)
	nodal	Transforming growth factor beta superfamily signaling ligand isoform X1. (415 aa)
	tgfbr-ia	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. (423 aa)
	bmp5/7-like	Transforming growth factor beta superfamily signaling ligand isoform X1. (660 aa)
	F7B9G3_CIOIN	TGF_BETA_2 domain-containing protein. (387 aa)
	smad4	Mothers against decapentaplegic homolog. (527 aa)
	Bmp3	TGF_BETA_2 domain-containing protein. (669 aa)
	F6UMA7_CIOIN	PID domain-containing protein. (458 aa)
	Lefty/antivin	TGF_BETA_2 domain-containing protein. (385 aa)
	Tgfbeta2	TGF_BETA_2 domain-containing protein. (435 aa)
	Tgfbeta-na1	TGF_BETA_2 domain-containing protein. (492 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
Bmp2/4	Bmp3	ENSCINP00000031019	ENSCINP00000013106	TGFb_propeptide domain-containing protein.	TGF_BETA_2 domain-containing protein.	0.529
Bmp2/4	Tgfbeta-na1	ENSCINP00000031019	ENSCINP00000024911	TGFb_propeptide domain-containing protein.	TGF_BETA_2 domain-containing protein.	0.579
Bmp2/4	Tgfbr-iib	ENSCINP00000031019	ENSCINP00000000345	TGFb_propeptide domain-containing protein.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily.	0.448
Bmp2/4	bmp5/7-like	ENSCINP00000031019	ENSCINP00000007797	TGFb_propeptide domain-containing protein.	Transforming growth factor beta superfamily signaling ligand isoform X1.	0.799
Bmp2/4	smad4	ENSCINP00000031019	ENSCINP00000011529	TGFb_propeptide domain-containing protein.	Mothers against decapentaplegic homolog.	0.906
Bmp2/4	tgfbr-ia	ENSCINP00000031019	ENSCINP00000003351	TGFb_propeptide domain-containing protein.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily.	0.869
Bmp3	Bmp2/4	ENSCINP00000013106	ENSCINP00000031019	TGF_BETA_2 domain-containing protein.	TGFb_propeptide domain-containing protein.	0.529
Bmp3	tgfbr-ia	ENSCINP00000013106	ENSCINP00000003351	TGF_BETA_2 domain-containing protein.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily.	0.494
F7B9G3_CIOIN	Tgfbr-iib	ENSCINP00000010102	ENSCINP00000000345	TGF_BETA_2 domain-containing protein.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily.	0.527
F7B9G3_CIOIN	smad4	ENSCINP00000010102	ENSCINP00000011529	TGF_BETA_2 domain-containing protein.	Mothers against decapentaplegic homolog.	0.594
F7B9G3_CIOIN	tgfbr-ia	ENSCINP00000010102	ENSCINP00000003351	TGF_BETA_2 domain-containing protein.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily.	0.599
Lefty/antivin	Tgfbeta2	ENSCINP00000017465	ENSCINP00000017469	TGF_BETA_2 domain-containing protein.	TGF_BETA_2 domain-containing protein.	0.923
Lefty/antivin	nodal	ENSCINP00000017465	ENSCINP00000002425	TGF_BETA_2 domain-containing protein.	Transforming growth factor beta superfamily signaling ligand isoform X1.	0.945
Lefty/antivin	tgfbr-ia	ENSCINP00000017465	ENSCINP00000003351	TGF_BETA_2 domain-containing protein.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily.	0.492
Tgfbeta-na1	Bmp2/4	ENSCINP00000024911	ENSCINP00000031019	TGF_BETA_2 domain-containing protein.	TGFb_propeptide domain-containing protein.	0.579
Tgfbeta-na1	tgfbr-ia	ENSCINP00000024911	ENSCINP00000003351	TGF_BETA_2 domain-containing protein.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily.	0.525
Tgfbeta2	Lefty/antivin	ENSCINP00000017469	ENSCINP00000017465	TGF_BETA_2 domain-containing protein.	TGF_BETA_2 domain-containing protein.	0.923
Tgfbeta2	Tgfbr-iib	ENSCINP00000017469	ENSCINP00000000345	TGF_BETA_2 domain-containing protein.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. TGFB receptor subfamily.	0.992
Tgfbeta2	smad4	ENSCINP00000017469	ENSCINP00000011529	TGF_BETA_2 domain-containing protein.	Mothers against decapentaplegic homolog.	0.550
Tgfbeta2	tgfbr-ia	ENSCINP00000017469	ENSCINP00000003351	TGF_BETA_2 domain-containing protein.	Receptor protein serine/threonine kinase; Belongs to the protein kinase superfamily.	0.562