(22 nodes) Regulation of tumor necrosis factor-mediated signaling pathway 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:
	LOC102357537	Coiled-coil domain containing 3b. (273 aa)
	PTPN2	Tyrosine-protein phosphatase non-receptor type. (397 aa)
	PIAS4	Protein inhibitor of activated STAT 4. (370 aa)
	SYK	Tyrosine-protein kinase. (616 aa)
	TRAIP	TRAF interacting protein. (461 aa)
	NAIP	NLR family apoptosis inhibitory protein. (1422 aa)
	UBE2K	Ubiquitin conjugating enzyme E2 K; Belongs to the ubiquitin-conjugating enzyme family. (211 aa)
	H3B1U1_LATCH	RING-type domain-containing protein. (527 aa)
	GAS6	Uncharacterized protein. (681 aa)
	LOC102346019	C1q domain-containing protein. (226 aa)
	SPATA2	Spermatogenesis associated 2. (525 aa)
	NR1H4	Nuclear receptor subfamily 1 group H member 4. (456 aa)
	LOC102365523	Uncharacterized protein; Belongs to the peptidase C19 family. (930 aa)
	ADIPOQ	Adiponectin, C1Q and collagen domain containing. (259 aa)
	OTULIN	OTU deubiquitinase with linear linkage specificity. (225 aa)
	TRIM32	Tripartite motif containing 32. (647 aa)
	PELI3	Pellino E3 ubiquitin protein ligase family member 3. (443 aa)
	RIPK1	Receptor interacting serine/threonine kinase 1. (667 aa)
	CYLD	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family. (959 aa)
	LOC102356355	TNFR-Cys domain-containing protein. (163 aa)
	ADAM17	ADAM metallopeptidase domain 17. (827 aa)
	LOC102349920	Uncharacterized protein. (199 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 protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ADIPOQ	LOC102346019	ENSLACP00000000452	ENSLACP00000019134	Adiponectin, C1Q and collagen domain containing.	C1q domain-containing protein.	0.904
CYLD	H3B1U1_LATCH	ENSLACP00000011027	ENSLACP00000015862	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family.	RING-type domain-containing protein.	0.603
CYLD	LOC102356355	ENSLACP00000011027	ENSLACP00000010674	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family.	TNFR-Cys domain-containing protein.	0.984
CYLD	NAIP	ENSLACP00000011027	ENSLACP00000014136	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family.	NLR family apoptosis inhibitory protein.	0.603
CYLD	OTULIN	ENSLACP00000011027	ENSLACP00000000813	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family.	OTU deubiquitinase with linear linkage specificity.	0.556
CYLD	RIPK1	ENSLACP00000011027	ENSLACP00000011259	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family.	Receptor interacting serine/threonine kinase 1.	0.937
CYLD	SPATA2	ENSLACP00000011027	ENSLACP00000020072	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family.	Spermatogenesis associated 2.	0.703
CYLD	SYK	ENSLACP00000011027	ENSLACP00000012982	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family.	Tyrosine-protein kinase.	0.415
CYLD	TRAIP	ENSLACP00000011027	ENSLACP00000014096	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family.	TRAF interacting protein.	0.484
H3B1U1_LATCH	CYLD	ENSLACP00000015862	ENSLACP00000011027	RING-type domain-containing protein.	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family.	0.603
H3B1U1_LATCH	LOC102356355	ENSLACP00000015862	ENSLACP00000010674	RING-type domain-containing protein.	TNFR-Cys domain-containing protein.	0.798
H3B1U1_LATCH	LOC102365523	ENSLACP00000015862	ENSLACP00000006306	RING-type domain-containing protein.	Uncharacterized protein; Belongs to the peptidase C19 family.	0.533
H3B1U1_LATCH	RIPK1	ENSLACP00000015862	ENSLACP00000011259	RING-type domain-containing protein.	Receptor interacting serine/threonine kinase 1.	0.770
LOC102346019	ADIPOQ	ENSLACP00000019134	ENSLACP00000000452	C1q domain-containing protein.	Adiponectin, C1Q and collagen domain containing.	0.904
LOC102349920	SYK	ENSLACP00000010067	ENSLACP00000012982	Uncharacterized protein.	Tyrosine-protein kinase.	0.439
LOC102356355	CYLD	ENSLACP00000010674	ENSLACP00000011027	TNFR-Cys domain-containing protein.	CYLD lysine 63 deubiquitinase; Belongs to the peptidase C19 family.	0.984
LOC102356355	H3B1U1_LATCH	ENSLACP00000010674	ENSLACP00000015862	TNFR-Cys domain-containing protein.	RING-type domain-containing protein.	0.798
LOC102356355	LOC102365523	ENSLACP00000010674	ENSLACP00000006306	TNFR-Cys domain-containing protein.	Uncharacterized protein; Belongs to the peptidase C19 family.	0.951
LOC102356355	NAIP	ENSLACP00000010674	ENSLACP00000014136	TNFR-Cys domain-containing protein.	NLR family apoptosis inhibitory protein.	0.798
LOC102356355	RIPK1	ENSLACP00000010674	ENSLACP00000011259	TNFR-Cys domain-containing protein.	Receptor interacting serine/threonine kinase 1.	0.995