(32 nodes) (2014) Using zebrafish to study podocyte genesis during kidney development and regeneration. 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:
	P4HA1	Prolyl 4-hydroxylase subunit alpha 1. (535 aa)
	P4HA2	Prolyl 4-hydroxylase subunit alpha 2. (541 aa)
	MYH9	Myosin heavy chain 9; Belongs to the TRAFAC class myosin-kinesin ATPase superfamily. Myosin family. (1964 aa)
	SLC1A1	Amino acid transporter. (523 aa)
	NPHS2	NPHS2 stomatin family member, podocin. (398 aa)
	CASP3	Caspase 3; Belongs to the peptidase C14A family. (290 aa)
	P4HA3	Prolyl 4-hydroxylase subunit alpha 3. (355 aa)
	OSR1	Odd-skipped related transcription factor 1. (259 aa)
	ARHGDIA	Rho GDP dissociation inhibitor alpha. (204 aa)
	SLC1A7	Amino acid transporter. (497 aa)
	ITGA3	Integrin subunit alpha 3; Belongs to the integrin alpha chain family. (1012 aa)
	PAX8	Paired box 8. (458 aa)
	LOC102358196	Uncharacterized protein. (392 aa)
	SLC1A3	Amino acid transporter. (441 aa)
	SLC1A5	Amino acid transporter. (565 aa)
	SLC1A4	Amino acid transporter. (188 aa)
	H3B1Q1_LATCH	Amino acid transporter. (383 aa)
	CD2AP	CD2 associated protein. (636 aa)
	LOC102358762	Amino acid transporter. (538 aa)
	HEY1	Hes related family bHLH transcription factor with YRPW motif 1. (304 aa)
	WT1	WT1 transcription factor. (422 aa)
	P4HTM	Prolyl 4-hydroxylase, transmembrane. (512 aa)
	PLCE1	Phospholipase C epsilon 1. (1914 aa)
	LOC102345634	Amino acid transporter. (345 aa)
	COQ6	Ubiquinone biosynthesis monooxygenase COQ6, mitochondrial; FAD-dependent monooxygenase required for the C5-ring hydroxylation during ubiquinone biosynthesis. Catalyzes the hydroxylation of 3-polyprenyl-4-hydroxybenzoic acid to 3-polyprenyl- 4,5-dihydroxybenzoic acid. The electrons required for the hydroxylation reaction may be funneled indirectly from NADPH via a ferredoxin/ferredoxin reductase system to COQ6. (467 aa)
	GLCCI1	Uncharacterized protein. (75 aa)
	FOXC2	Forkhead box C2. (469 aa)
	LOC102345533	T-box transcription factor 16. (438 aa)
	SLC1A6	Amino acid transporter. (547 aa)
	FAT1	FAT atypical cadherin 1. (3389 aa)
	SLC1A2	Amino acid transporter. (566 aa)
	ALDH1A2	Aldehyde dehydrogenase 1 family member A2; Belongs to the aldehyde dehydrogenase family. (497 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
ARHGDIA	COQ6	ENSLACP00000005763	ENSLACP00000020923	Rho GDP dissociation inhibitor alpha.	Ubiquinone biosynthesis monooxygenase COQ6, mitochondrial; FAD-dependent monooxygenase required for the C5-ring hydroxylation during ubiquinone biosynthesis. Catalyzes the hydroxylation of 3-polyprenyl-4-hydroxybenzoic acid to 3-polyprenyl- 4,5-dihydroxybenzoic acid. The electrons required for the hydroxylation reaction may be funneled indirectly from NADPH via a ferredoxin/ferredoxin reductase system to COQ6.	0.679
ARHGDIA	PLCE1	ENSLACP00000005763	ENSLACP00000019918	Rho GDP dissociation inhibitor alpha.	Phospholipase C epsilon 1.	0.668
CD2AP	FAT1	ENSLACP00000016354	ENSLACP00000014347	CD2 associated protein.	FAT atypical cadherin 1.	0.739
CD2AP	NPHS2	ENSLACP00000016354	ENSLACP00000007538	CD2 associated protein.	NPHS2 stomatin family member, podocin.	0.815
CD2AP	PLCE1	ENSLACP00000016354	ENSLACP00000019918	CD2 associated protein.	Phospholipase C epsilon 1.	0.496
COQ6	ARHGDIA	ENSLACP00000020923	ENSLACP00000005763	Ubiquinone biosynthesis monooxygenase COQ6, mitochondrial; FAD-dependent monooxygenase required for the C5-ring hydroxylation during ubiquinone biosynthesis. Catalyzes the hydroxylation of 3-polyprenyl-4-hydroxybenzoic acid to 3-polyprenyl- 4,5-dihydroxybenzoic acid. The electrons required for the hydroxylation reaction may be funneled indirectly from NADPH via a ferredoxin/ferredoxin reductase system to COQ6.	Rho GDP dissociation inhibitor alpha.	0.679
COQ6	NPHS2	ENSLACP00000020923	ENSLACP00000007538	Ubiquinone biosynthesis monooxygenase COQ6, mitochondrial; FAD-dependent monooxygenase required for the C5-ring hydroxylation during ubiquinone biosynthesis. Catalyzes the hydroxylation of 3-polyprenyl-4-hydroxybenzoic acid to 3-polyprenyl- 4,5-dihydroxybenzoic acid. The electrons required for the hydroxylation reaction may be funneled indirectly from NADPH via a ferredoxin/ferredoxin reductase system to COQ6.	NPHS2 stomatin family member, podocin.	0.438
COQ6	P4HTM	ENSLACP00000020923	ENSLACP00000019132	Ubiquinone biosynthesis monooxygenase COQ6, mitochondrial; FAD-dependent monooxygenase required for the C5-ring hydroxylation during ubiquinone biosynthesis. Catalyzes the hydroxylation of 3-polyprenyl-4-hydroxybenzoic acid to 3-polyprenyl- 4,5-dihydroxybenzoic acid. The electrons required for the hydroxylation reaction may be funneled indirectly from NADPH via a ferredoxin/ferredoxin reductase system to COQ6.	Prolyl 4-hydroxylase, transmembrane.	0.420
COQ6	PLCE1	ENSLACP00000020923	ENSLACP00000019918	Ubiquinone biosynthesis monooxygenase COQ6, mitochondrial; FAD-dependent monooxygenase required for the C5-ring hydroxylation during ubiquinone biosynthesis. Catalyzes the hydroxylation of 3-polyprenyl-4-hydroxybenzoic acid to 3-polyprenyl- 4,5-dihydroxybenzoic acid. The electrons required for the hydroxylation reaction may be funneled indirectly from NADPH via a ferredoxin/ferredoxin reductase system to COQ6.	Phospholipase C epsilon 1.	0.687
FAT1	CD2AP	ENSLACP00000014347	ENSLACP00000016354	FAT atypical cadherin 1.	CD2 associated protein.	0.739
FAT1	NPHS2	ENSLACP00000014347	ENSLACP00000007538	FAT atypical cadherin 1.	NPHS2 stomatin family member, podocin.	0.839
GLCCI1	P4HTM	ENSLACP00000015684	ENSLACP00000019132	Uncharacterized protein.	Prolyl 4-hydroxylase, transmembrane.	0.409
H3B1Q1_LATCH	SLC1A4	ENSLACP00000015822	ENSLACP00000015774	Amino acid transporter.	Amino acid transporter.	0.951
ITGA3	NPHS2	ENSLACP00000004591	ENSLACP00000007538	Integrin subunit alpha 3; Belongs to the integrin alpha chain family.	NPHS2 stomatin family member, podocin.	0.507
LOC102345634	SLC1A4	ENSLACP00000020079	ENSLACP00000015774	Amino acid transporter.	Amino acid transporter.	0.949
LOC102358196	NPHS2	ENSLACP00000002843	ENSLACP00000007538	Uncharacterized protein.	NPHS2 stomatin family member, podocin.	0.598
NPHS2	CD2AP	ENSLACP00000007538	ENSLACP00000016354	NPHS2 stomatin family member, podocin.	CD2 associated protein.	0.815
NPHS2	COQ6	ENSLACP00000007538	ENSLACP00000020923	NPHS2 stomatin family member, podocin.	Ubiquinone biosynthesis monooxygenase COQ6, mitochondrial; FAD-dependent monooxygenase required for the C5-ring hydroxylation during ubiquinone biosynthesis. Catalyzes the hydroxylation of 3-polyprenyl-4-hydroxybenzoic acid to 3-polyprenyl- 4,5-dihydroxybenzoic acid. The electrons required for the hydroxylation reaction may be funneled indirectly from NADPH via a ferredoxin/ferredoxin reductase system to COQ6.	0.438
NPHS2	FAT1	ENSLACP00000007538	ENSLACP00000014347	NPHS2 stomatin family member, podocin.	FAT atypical cadherin 1.	0.839
NPHS2	ITGA3	ENSLACP00000007538	ENSLACP00000004591	NPHS2 stomatin family member, podocin.	Integrin subunit alpha 3; Belongs to the integrin alpha chain family.	0.507