traf4 protein (Poecilia reticulata) - STRING interaction network

Nodes:

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query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

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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:

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Cooccurrence

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[Homology]

Score

traf4

TNF receptor-associated factor; Belongs to the TNF receptor-associated factor family. (538 aa)

Predicted Functional Partners:

tradd

0.789

Birc6

0.761

mib2

0.728

rps27a

0.706

myd88

0.683

irak4

0.680

ncf1

0.680

uba52

0.659

zfand4

0.609

ecsit

0.599

Your Current Organism:

Poecilia reticulata

NCBI taxonomy Id: 8081
Other names: Acanthophacelus reticulata, P. reticulata, Poecilia (Acanthophacelus) reticulata, Poecilia latipinna reticulata, guppy

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
Birc6	irak4	ENSPREP00000027146	ENSPREP00000014585	UBIQUITIN_CONJUGAT_2 domain-containing protein.	Interleukin-1 receptor-associated kinase 4.	0.451
Birc6	mib2	ENSPREP00000027146	ENSPREP00000014990	UBIQUITIN_CONJUGAT_2 domain-containing protein.	Mindbomb E3 ubiquitin protein ligase 2.	0.727
Birc6	myd88	ENSPREP00000027146	ENSPREP00000031341	UBIQUITIN_CONJUGAT_2 domain-containing protein.	Myeloid differentiation primary response protein MyD88; Adapter protein involved in the Toll-like receptor and IL-1 receptor signaling pathway in the innate immune response.	0.419
Birc6	rps27a	ENSPREP00000027146	ENSPREP00000018427	UBIQUITIN_CONJUGAT_2 domain-containing protein.	Ribosomal protein S27a.	0.975
Birc6	tradd	ENSPREP00000027146	ENSPREP00000001843	UBIQUITIN_CONJUGAT_2 domain-containing protein.	Tnfrsf1a-associated via death domain.	0.820
Birc6	traf4	ENSPREP00000027146	ENSPREP00000013503	UBIQUITIN_CONJUGAT_2 domain-containing protein.	TNF receptor-associated factor; Belongs to the TNF receptor-associated factor family.	0.761
Birc6	uba52	ENSPREP00000027146	ENSPREP00000016516	UBIQUITIN_CONJUGAT_2 domain-containing protein.	Ubiquitin A-52 residue ribosomal protein fusion product 1.	0.993
Birc6	zfand4	ENSPREP00000027146	ENSPREP00000028331	UBIQUITIN_CONJUGAT_2 domain-containing protein.	Zinc finger, AN1-type domain 4.	0.939
ecsit	irak4	ENSPREP00000005735	ENSPREP00000014585	ECSIT signalling integrator.	Interleukin-1 receptor-associated kinase 4.	0.566
ecsit	myd88	ENSPREP00000005735	ENSPREP00000031341	ECSIT signalling integrator.	Myeloid differentiation primary response protein MyD88; Adapter protein involved in the Toll-like receptor and IL-1 receptor signaling pathway in the innate immune response.	0.405
ecsit	traf4	ENSPREP00000005735	ENSPREP00000013503	ECSIT signalling integrator.	TNF receptor-associated factor; Belongs to the TNF receptor-associated factor family.	0.599
irak4	Birc6	ENSPREP00000014585	ENSPREP00000027146	Interleukin-1 receptor-associated kinase 4.	UBIQUITIN_CONJUGAT_2 domain-containing protein.	0.451
irak4	ecsit	ENSPREP00000014585	ENSPREP00000005735	Interleukin-1 receptor-associated kinase 4.	ECSIT signalling integrator.	0.566
irak4	mib2	ENSPREP00000014585	ENSPREP00000014990	Interleukin-1 receptor-associated kinase 4.	Mindbomb E3 ubiquitin protein ligase 2.	0.571
irak4	myd88	ENSPREP00000014585	ENSPREP00000031341	Interleukin-1 receptor-associated kinase 4.	Myeloid differentiation primary response protein MyD88; Adapter protein involved in the Toll-like receptor and IL-1 receptor signaling pathway in the innate immune response.	0.999
irak4	traf4	ENSPREP00000014585	ENSPREP00000013503	Interleukin-1 receptor-associated kinase 4.	TNF receptor-associated factor; Belongs to the TNF receptor-associated factor family.	0.680
mib2	Birc6	ENSPREP00000014990	ENSPREP00000027146	Mindbomb E3 ubiquitin protein ligase 2.	UBIQUITIN_CONJUGAT_2 domain-containing protein.	0.727
mib2	irak4	ENSPREP00000014990	ENSPREP00000014585	Mindbomb E3 ubiquitin protein ligase 2.	Interleukin-1 receptor-associated kinase 4.	0.571
mib2	myd88	ENSPREP00000014990	ENSPREP00000031341	Mindbomb E3 ubiquitin protein ligase 2.	Myeloid differentiation primary response protein MyD88; Adapter protein involved in the Toll-like receptor and IL-1 receptor signaling pathway in the innate immune response.	0.456
mib2	rps27a	ENSPREP00000014990	ENSPREP00000018427	Mindbomb E3 ubiquitin protein ligase 2.	Ribosomal protein S27a.	0.992

page 1 of 4

Network Stats

number of nodes:

4

number of edges:

3

average node degree:

1.5

avg. local clustering coefficient:

0.75

expected number of edges:

3

PPI enrichment p-value:

0.562

your network does not have significantly more
interactions than expected (what does that mean?)

Functional enrichments in your networkNote: some enrichments may be expected here (why?)
disable highlight explain columns

Biological Process (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0045664

Regulation of neuron differentiation

6 of 80

2.19

3.85

8.75e-09

GO:0045666

Positive regulation of neuron differentiation

5 of 40

2.41

3.76

4.36e-08

GO:0001711

Endodermal cell fate commitment

2 of 3

3.14

1.83

0.00049

GO:0045597

Positive regulation of cell differentiation

6 of 478

1.42

1.69

1.34e-05

GO:0045944

Positive regulation of transcription by RNA polymerase II

8 of 880

1.28

1.66

7.57e-07

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0070888

E-box binding

7 of 32

2.66

6.95

2.09e-14

GO:0008134

Transcription factor binding

7 of 358

1.61

2.49

1.04e-07

GO:0001228

DNA-binding transcription activator activity, RNA polymerase II-specific

6 of 252

1.69

2.43

7.66e-07

GO:0046982

Protein heterodimerization activity

6 of 258

1.68

2.41

7.66e-07

GO:0046983

Protein dimerization activity

7 of 842

1.24

1.42

1.23e-05

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005667

Transcription regulator complex

7 of 371

1.59

2.44

1.25e-07

GO:0016593

Cdc73/Paf1 complex

2 of 9

2.66

1.27

0.0048

GO:0005721

Pericentric heterochromatin

2 of 18

2.36

1.03

0.0125

GO:0005634

Nucleus

11 of 6688

0.53

0.43

0.00085

GO:0032991

Protein-containing complex

9 of 5100

0.56

0.39

0.0125

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:36459298

(2022) Achiasmatic meiosis in the unisexual Amazon molly, Poecilia formosa.

2 of 20

2.32

0.77

0.0397

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:31959

Myogenesis, and DNA-binding protein inhibitor

6 of 24

2.72

5.82

6.88e-12

CL:31867

Mixed, incl. Helix-loop-helix DNA-binding domain superfamily, and RUNX1 regulates transcription of genes involved in differentiation of HSCs

7 of 114

2.11

4.48

7.89e-11

CL:31960

MADS MEF2-like, and Myogenic factor

3 of 15

2.62

2.36

4.20e-05

CL:10560

Endodermal cell fate commitment, and Spinal cord oligodendrocyte cell differentiation

2 of 5

2.92

1.45

0.0024

CL:31990

DNA-binding protein inhibitor, and Positive regulation of skeletal muscle fiber development

2 of 6

2.84

1.4

0.0029

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-525793

Myogenesis

5 of 54

2.28

3.55

7.30e-08

MAP-1266738

Developmental Biology

6 of 811

1.19

1.06

0.00067

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0016593

Cdc73/Paf1 complex

2 of 8

2.72

1.23

0.0058

GOCC:0005721

Pericentric heterochromatin

2 of 7

2.77

1.23

0.0058

GOCC:0005634

Nucleus

9 of 3523

0.72

0.55

0.0031

GOCC:0043229

Intracellular organelle

11 of 9083

0.4

0.3

0.0150

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR036638

Helix-loop-helix DNA-binding domain superfamily

5 of 144

1.86

2.07

3.49e-05

IPR011598

Myc-type, basic helix-loop-helix (bHLH) domain

5 of 145

1.86

2.07

3.49e-05

IPR008251

Chromo shadow domain

2 of 5

2.92

1.1

0.0104

IPR017984

Chromo domain subgroup

2 of 10

2.62

0.89

0.0246

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00353

Helix loop helix domain

5 of 149

1.84

2.38

4.51e-06

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