(51 nodes) Positive regulation of innate immune response network (Austrofundulus limnaeus)

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:
	ikbke	Inhibitor of nuclear factor kappa-B kinase subunit epsilon. (721 aa)
	cd226	CD226 antigen isoform X1. (357 aa)
	trim62	E3 ubiquitin-protein ligase TRIM62. (475 aa)
	rnf185	E3 ubiquitin-protein ligase RNF185. (194 aa)
	LOC106514611	Cell adhesion molecule 1-like isoform X1. (443 aa)
	polr3b	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. (1132 aa)
	crtam	Cytotoxic and regulatory T-cell molecule. (462 aa)
	LOC106516720	non-POU domain-containing octamer-binding protein-like. (438 aa)
	med1	Mediator of RNA polymerase II transcription subunit 1; Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene- specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. (1785 aa)
	casp6	Caspase-6; Belongs to the peptidase C14A family. (298 aa)
	LOC106517165	Ubiquitin-conjugating enzyme E2 K; Belongs to the ubiquitin-conjugating enzyme family. (200 aa)
	LOC106517444	Interferon regulatory factor 3-like. (462 aa)
	znfx1	NFX1-type zinc finger-containing protein 1. (1901 aa)
	tyrobp	TYRO protein tyrosine kinase-binding protein isoform X1. (172 aa)
	hpx	Hemopexin; Binds heme and transports it to the liver for breakdown and iron recovery, after which the free hemopexin returns to the circulation. (424 aa)
	pqbp1	Polyglutamine-binding protein 1 isoform X1. (239 aa)
	LOC106519860	Uncharacterized protein CXorf21 homolog. (317 aa)
	ereg	Proepiregulin. (154 aa)
	polr3d	DNA-directed RNA polymerase III subunit RPC4. (388 aa)
	LOC106520193	Matrin-3-like. (1155 aa)
	LOC106520385	Cell adhesion molecule 1-like isoform X1. (419 aa)
	ube2k	Ubiquitin-conjugating enzyme E2 K isoform X1; Belongs to the ubiquitin-conjugating enzyme family. (202 aa)
	LOC106521997	Akirin-2-like. (181 aa)
	LOC106523066	Free fatty acid receptor 2-like isoform X1. (344 aa)
	xrcc5	X-ray repair cross-complementing protein 5 isoform X1. (755 aa)
	LOC106523691	X-ray repair cross-complementing protein 5-like. (610 aa)
	LOC106524033	Interleukin-12 subunit beta; Belongs to the type I cytokine receptor family. Type 3 subfamily. (318 aa)
	ifi35	Interferon-induced 35 kDa protein. (372 aa)
	LOC106525685	Akirin-2-like. (178 aa)
	tomm70a	Mitochondrial import receptor subunit TOM70. (575 aa)
	LOC106526561	FAS-associated death domain protein-like. (196 aa)
	lsm14a	Protein LSM14 homolog A isoform X1. (444 aa)
	LOC106527245	SH2 domain-containing protein 1A-like. (146 aa)
	riok3	Serine/threonine-protein kinase RIO3; Belongs to the protein kinase superfamily. RIO-type Ser/Thr kinase family. (508 aa)
	LOC106527922	RNA-binding protein 4B-like isoform X1. (344 aa)
	LOC106527921	RNA-binding protein 4B-like. (342 aa)
	polr3f	DNA-directed RNA polymerase III subunit RPC6; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Specific peripheric component of RNA polymerase III which synthesizes small RNAs, such as 5S rRNA and tRNAs; Belongs to the eukaryotic RPC34/RPC39 RNA polymerase subunit family. (316 aa)
	LOC106529130	Splicing factor, proline- and glutamine-rich-like. (406 aa)
	LOC106529896	Serine/threonine-protein kinase TBK1-like. (723 aa)
	LOC106530082	Free fatty acid receptor 3-like. (350 aa)
	nmi	N-myc-interactor. (380 aa)
	LOC106531024	Protein LSM14 homolog A-like. (491 aa)
	LOC106531043	RNA-binding protein 14-like. (146 aa)
	LOC106531849	SH2 domain-containing protein 1B-like. (197 aa)
	tirap	Toll/interleukin-1 receptor domain-containing adapter protein. (186 aa)
	LOC106532596	X-ray repair cross-complementing protein 5-like. (411 aa)
	card9	Caspase recruitment domain-containing protein 9. (510 aa)
	supt5h	Transcription elongation factor SPT5. (1080 aa)
	LOC106534679	X-ray repair cross-complementing protein 6-like. (138 aa)
	tmem173	Stimulator of interferon genes protein. (382 aa)
	lamp1	Lysosome-associated membrane glycoprotein 1. (416 aa)

Your Current Organism:

Austrofundulus limnaeus

NCBI taxonomy Id: 52670
Other names: A. limnaeus

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
LOC106514611	LOC106520385	A0A2I4AV98	A0A2I4BJK2	Cell adhesion molecule 1-like isoform X1.	Cell adhesion molecule 1-like isoform X1.	0.901
LOC106514611	crtam	A0A2I4AV98	A0A2I4B183	Cell adhesion molecule 1-like isoform X1.	Cytotoxic and regulatory T-cell molecule.	0.437
LOC106516720	LOC106520193	A0A2I4B4K1	A0A2I4BIP2	non-POU domain-containing octamer-binding protein-like.	Matrin-3-like.	0.538
LOC106517165	ube2k	A0A2I4B6G9	A0A2I4BLV5	Ubiquitin-conjugating enzyme E2 K; Belongs to the ubiquitin-conjugating enzyme family.	Ubiquitin-conjugating enzyme E2 K isoform X1; Belongs to the ubiquitin-conjugating enzyme family.	0.900
LOC106517444	LOC106529896	A0A2I4B7P1	A0A2I4CLM1	Interferon regulatory factor 3-like.	Serine/threonine-protein kinase TBK1-like.	0.992
LOC106517444	card9	A0A2I4B7P1	A0A2I4D169	Interferon regulatory factor 3-like.	Caspase recruitment domain-containing protein 9.	0.914
LOC106517444	ikbke	A0A2I4B7P1	A0A2I4APY6	Interferon regulatory factor 3-like.	Inhibitor of nuclear factor kappa-B kinase subunit epsilon.	0.989
LOC106517444	tirap	A0A2I4B7P1	A0A2I4CTR5	Interferon regulatory factor 3-like.	Toll/interleukin-1 receptor domain-containing adapter protein.	0.509
LOC106517444	tmem173	A0A2I4B7P1	A0A2I4D3U1	Interferon regulatory factor 3-like.	Stimulator of interferon genes protein.	0.968
LOC106520193	LOC106516720	A0A2I4BIP2	A0A2I4B4K1	Matrin-3-like.	non-POU domain-containing octamer-binding protein-like.	0.538
LOC106520385	LOC106514611	A0A2I4BJK2	A0A2I4AV98	Cell adhesion molecule 1-like isoform X1.	Cell adhesion molecule 1-like isoform X1.	0.901
LOC106520385	crtam	A0A2I4BJK2	A0A2I4B183	Cell adhesion molecule 1-like isoform X1.	Cytotoxic and regulatory T-cell molecule.	0.437
LOC106523691	LOC106532596	A0A2I4BY89	A0A2I4CW01	X-ray repair cross-complementing protein 5-like.	X-ray repair cross-complementing protein 5-like.	0.900
LOC106523691	xrcc5	A0A2I4BY89	A0A2I4BWQ5	X-ray repair cross-complementing protein 5-like.	X-ray repair cross-complementing protein 5 isoform X1.	0.983
LOC106526561	LOC106529896	A0A2I4C9H4	A0A2I4CLM1	FAS-associated death domain protein-like.	Serine/threonine-protein kinase TBK1-like.	0.413
LOC106526561	casp6	A0A2I4C9H4	A0A2I4B654	FAS-associated death domain protein-like.	Caspase-6; Belongs to the peptidase C14A family.	0.567
LOC106526561	ikbke	A0A2I4C9H4	A0A2I4APY6	FAS-associated death domain protein-like.	Inhibitor of nuclear factor kappa-B kinase subunit epsilon.	0.413
LOC106529896	LOC106517444	A0A2I4CLM1	A0A2I4B7P1	Serine/threonine-protein kinase TBK1-like.	Interferon regulatory factor 3-like.	0.992
LOC106529896	LOC106526561	A0A2I4CLM1	A0A2I4C9H4	Serine/threonine-protein kinase TBK1-like.	FAS-associated death domain protein-like.	0.413
LOC106529896	ikbke	A0A2I4CLM1	A0A2I4APY6	Serine/threonine-protein kinase TBK1-like.	Inhibitor of nuclear factor kappa-B kinase subunit epsilon.	0.900