(86 nodes) Tube formation network (Latimeria chalumnae)

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:
	EDA	Ectodysplasin A; Belongs to the tumor necrosis factor family. (223 aa)
	TSC2	TSC complex subunit 2. (1836 aa)
	LRRC1	Uncharacterized protein. (155 aa)
	LOC102346204	Protein kinase domain-containing protein. (227 aa)
	BBS4	Bardet-Biedl syndrome 4. (537 aa)
	STK4	Serine/threonine kinase 4. (488 aa)
	GATA3	GATA binding protein 3. (447 aa)
	TRAF6	TNF receptor-associated factor; Belongs to the TNF receptor-associated factor family. (559 aa)
	LOC102354865	Uncharacterized protein. (746 aa)
	OPA1	OPA1 mitochondrial dynamin like GTPase; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family. (994 aa)
	LMO4	LIM domain only 4b. (165 aa)
	PTCH1	Patched 1. (1287 aa)
	EDAR	Ectodysplasin A receptor. (454 aa)
	SHANK3	SH3 and multiple ankyrin repeat domains 3. (1187 aa)
	RET	Ret proto-oncogene; Belongs to the protein kinase superfamily. Tyr protein kinase family. (1090 aa)
	WNT9B	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family. (362 aa)
	ABL2	Tyrosine-protein kinase. (1175 aa)
	GDF7	Growth differentiation factor 7. (416 aa)
	MTHFD1L	Uncharacterized protein. (90 aa)
	KDM6A	Lysine (K)-specific demethylase 6A. (1452 aa)
	GREM1	Gremlin 1, DAN family BMP antagonist. (189 aa)
	GDNF	Glial cell derived neurotrophic factor. (222 aa)
	LIAS	Lipoyl synthase, mitochondrial; Catalyzes the radical-mediated insertion of two sulfur atoms into the C-6 and C-8 positions of the octanoyl moiety bound to the lipoyl domains of lipoate-dependent enzymes, thereby converting the octanoylated domains into lipoylated derivatives. (387 aa)
	HS2ST1	Heparan sulfate 2-O-sulfotransferase 1b. (347 aa)
	SEC24B	SEC24 homolog B, COPII coat complex component. (1197 aa)
	ATOH8	Atonal bHLH transcription factor 8. (279 aa)
	SFRP2	Secreted frizzled related protein 2. (294 aa)
	LOC102362951	Protein kinase, cAMP-dependent, catalytic, alpha, genome duplicate a; Belongs to the protein kinase superfamily. (351 aa)
	FGF8	Fibroblast growth factor; Belongs to the heparin-binding growth factors family. (213 aa)
	CECR2	CECR2 histone acetyl-lysine reader. (1363 aa)
	SETD2	SET domain containing 2, histone lysine methyltransferase. (2541 aa)
	MIB1	Mindbomb E3 ubiquitin protein ligase 1. (989 aa)
	CLUAP1	Clusterin associated protein 1. (348 aa)
	LOC102353169	Uncharacterized protein. (245 aa)
	HECTD1	HECT domain E3 ubiquitin protein ligase 1. (2580 aa)
	ITGB1BP1	Integrin subunit beta 1 binding protein 1. (200 aa)
	SHROOM3	Shroom family member 3. (1790 aa)
	CLDN7	Claudin 7b. (145 aa)
	H3AJF8_LATCH	Peptidase S1 domain-containing protein. (483 aa)
	MTHFR	Methylenetetrahydrofolate reductase; Belongs to the methylenetetrahydrofolate reductase family. (650 aa)
	VEGFA	Vascular endothelial growth factor A; Belongs to the PDGF/VEGF growth factor family. (189 aa)
	SUFU	SUFU negative regulator of hedgehog signaling. (422 aa)
	H3ALU1_LATCH	Uncharacterized protein. (1358 aa)
	ARHGAP35	Rho GTPase activating protein 35b. (1487 aa)
	STIL	STIL centriolar assembly protein. (1298 aa)
	HESX1	HESX homeobox 1. (185 aa)
	FZD3	Frizzled class receptor 3; Belongs to the G-protein coupled receptor Fz/Smo family. (604 aa)
	TSC1	TSC complex subunit 1. (1217 aa)
	VASP	Vasodilator stimulated phosphoprotein. (444 aa)
	IRX3	Iroquois homeobox 3. (447 aa)
	IFT57	Intraflagellar transport 57. (428 aa)
	PRKACB	Uncharacterized protein; Belongs to the protein kinase superfamily. (351 aa)
	APAF1	Apoptotic peptidase activating factor 1. (1202 aa)
	IRX1	Iroquois homeobox 1. (460 aa)
	PTK7	Protein tyrosine kinase 7 (inactive); Belongs to the protein kinase superfamily. Tyr protein kinase family. (1067 aa)
	SALL4	Spalt like transcription factor 4. (1002 aa)
	CTHRC1	Collagen triple helix repeat containing 1. (151 aa)
	GLMN	Glomulin, FKBP associated protein. (597 aa)
	DEAF1	DEAF1 transcription factor. (565 aa)
	SDCCAG8	Serologically defined colon cancer antigen 8. (726 aa)
	DVL3	Dishevelled segment polarity protein 3. (716 aa)
	DVL2	Dishevelled segment polarity protein 2. (401 aa)
	CTNNB1	Catenin beta 1. (781 aa)
	H3B780_LATCH	Uncharacterized protein. (370 aa)
	ABL1	Tyrosine-protein kinase. (1156 aa)
	LOC102365660	Uncharacterized protein. (187 aa)
	LOC102366172	Uncharacterized protein. (183 aa)
	BCAS3	BCAS3 microtubule associated cell migration factor. (806 aa)
	MTHFD1	Methylenetetrahydrofolate dehydrogenase, cyclohydrolase and formyltetrahydrofolate synthetase 1. (930 aa)
	SOX8	SRY-box transcription factor 8. (477 aa)
	TMED2	Transmembrane p24 trafficking protein 2. (208 aa)
	WNT6	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family. (348 aa)
	PHACTR4	Phosphatase and actin regulator. (702 aa)
	BMP7	Bone morphogenetic protein 7. (425 aa)
	HNF1A	HNF1 homeobox A. (624 aa)
	TGFB1	Transforming growth factor beta; Belongs to the TGF-beta family. (401 aa)
	ST14	Suppressor of tumorigenicity 14 protein homolog; Degrades extracellular matrix. (845 aa)
	HAND1	Heart and neural crest derivatives expressed 1. (196 aa)
	DVL1	Dishevelled segment polarity protein 1. (552 aa)
	MKS1	MKS transition zone complex subunit 1. (561 aa)
	IFT52	Intraflagellar transport 52. (440 aa)
	LOC102350297	Protein Wnt; Ligand for members of the frizzled family of seven transmembrane receptors; Belongs to the Wnt family. (354 aa)
	M3XHJ5_LATCH	Uncharacterized protein. (158 aa)
	FUZ	Fuzzy planar cell polarity protein. (426 aa)
	M3XL62_LATCH	Uncharacterized protein. (269 aa)
	TCTN1	Tectonic family member 1. (656 aa)

Your Current Organism:

Latimeria chalumnae

NCBI taxonomy Id: 7897
Other names: L. chalumnae, coelacanth

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
ABL1	ABL2	ENSLACP00000017765	ENSLACP00000006377	Tyrosine-protein kinase.	Tyrosine-protein kinase.	0.902
ABL1	CTNNB1	ENSLACP00000017765	ENSLACP00000017209	Tyrosine-protein kinase.	Catenin beta 1.	0.684
ABL1	VASP	ENSLACP00000017765	ENSLACP00000013387	Tyrosine-protein kinase.	Vasodilator stimulated phosphoprotein.	0.503
ABL2	ABL1	ENSLACP00000006377	ENSLACP00000017765	Tyrosine-protein kinase.	Tyrosine-protein kinase.	0.902
ABL2	CTNNB1	ENSLACP00000006377	ENSLACP00000017209	Tyrosine-protein kinase.	Catenin beta 1.	0.684
ABL2	VASP	ENSLACP00000006377	ENSLACP00000013387	Tyrosine-protein kinase.	Vasodilator stimulated phosphoprotein.	0.503
APAF1	M3XHJ5_LATCH	ENSLACP00000014568	ENSLACP00000022201	Apoptotic peptidase activating factor 1.	Uncharacterized protein.	0.568
BBS4	CLUAP1	ENSLACP00000002102	ENSLACP00000008605	Bardet-Biedl syndrome 4.	Clusterin associated protein 1.	0.563
BBS4	IFT52	ENSLACP00000002102	ENSLACP00000021626	Bardet-Biedl syndrome 4.	Intraflagellar transport 52.	0.671
BBS4	IFT57	ENSLACP00000002102	ENSLACP00000013629	Bardet-Biedl syndrome 4.	Intraflagellar transport 57.	0.719
BBS4	MKS1	ENSLACP00000002102	ENSLACP00000021459	Bardet-Biedl syndrome 4.	MKS transition zone complex subunit 1.	0.429
BMP7	FGF8	ENSLACP00000019986	ENSLACP00000007843	Bone morphogenetic protein 7.	Fibroblast growth factor; Belongs to the heparin-binding growth factors family.	0.452
BMP7	GDF7	ENSLACP00000019986	ENSLACP00000006410	Bone morphogenetic protein 7.	Growth differentiation factor 7.	0.616
BMP7	GREM1	ENSLACP00000019986	ENSLACP00000007025	Bone morphogenetic protein 7.	Gremlin 1, DAN family BMP antagonist.	0.727
BMP7	TGFB1	ENSLACP00000019986	ENSLACP00000020652	Bone morphogenetic protein 7.	Transforming growth factor beta; Belongs to the TGF-beta family.	0.418
CECR2	GATA3	ENSLACP00000008055	ENSLACP00000003446	CECR2 histone acetyl-lysine reader.	GATA binding protein 3.	0.419
CECR2	SETD2	ENSLACP00000008055	ENSLACP00000008064	CECR2 histone acetyl-lysine reader.	SET domain containing 2, histone lysine methyltransferase.	0.534
CLUAP1	BBS4	ENSLACP00000008605	ENSLACP00000002102	Clusterin associated protein 1.	Bardet-Biedl syndrome 4.	0.563
CLUAP1	IFT52	ENSLACP00000008605	ENSLACP00000021626	Clusterin associated protein 1.	Intraflagellar transport 52.	0.998
CLUAP1	IFT57	ENSLACP00000008605	ENSLACP00000013629	Clusterin associated protein 1.	Intraflagellar transport 57.	0.999