ogfod1 protein (Poecilia reticulata) - STRING interaction network

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second shell of interactors

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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

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textmining

co-expression

protein homology

Your Input:

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Score

ogfod1

2-oxoglutarate and iron-dependent oxygenase domain containing 1. (459 aa)

Predicted Functional Partners:

sycp3

0.944

tufm

0.840

rps23

0.611

etf1

0.592

tsr1

0.575

trmt1

0.569

trmt1l

0.569

polr3a

0.559

bms1

0.556

ENSPREP00000023041

0.550

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
ENSPREP00000023041	ogfod1	ENSPREP00000023041	ENSPREP00000001816	Coproporphyrinogen oxidase.	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	0.550
bms1	etf1	ENSPREP00000003768	ENSPREP00000002564	BMS1 ribosome biogenesis factor.	Eukaryotic translation termination factor 1b.	0.499
bms1	ogfod1	ENSPREP00000003768	ENSPREP00000001816	BMS1 ribosome biogenesis factor.	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	0.556
bms1	polr3a	ENSPREP00000003768	ENSPREP00000003367	BMS1 ribosome biogenesis factor.	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.754
bms1	rps23	ENSPREP00000003768	ENSPREP00000033728	BMS1 ribosome biogenesis factor.	Ribosomal protein S23; Belongs to the universal ribosomal protein uS12 family.	0.989
bms1	trmt1	ENSPREP00000003768	ENSPREP00000000264	BMS1 ribosome biogenesis factor.	tRNA (guanine(26)-N(2))-dimethyltransferase.	0.502
bms1	trmt1l	ENSPREP00000003768	ENSPREP00000004059	BMS1 ribosome biogenesis factor.	tRNA methyltransferase 1-like; Belongs to the class I-like SAM-binding methyltransferase superfamily. Trm1 family.	0.502
bms1	tsr1	ENSPREP00000003768	ENSPREP00000015369	BMS1 ribosome biogenesis factor.	TSR1 ribosome maturation factor.	0.955
etf1	bms1	ENSPREP00000002564	ENSPREP00000003768	Eukaryotic translation termination factor 1b.	BMS1 ribosome biogenesis factor.	0.499
etf1	ogfod1	ENSPREP00000002564	ENSPREP00000001816	Eukaryotic translation termination factor 1b.	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	0.592
etf1	polr3a	ENSPREP00000002564	ENSPREP00000003367	Eukaryotic translation termination factor 1b.	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.464
etf1	rps23	ENSPREP00000002564	ENSPREP00000033728	Eukaryotic translation termination factor 1b.	Ribosomal protein S23; Belongs to the universal ribosomal protein uS12 family.	0.897
ogfod1	ENSPREP00000023041	ENSPREP00000001816	ENSPREP00000023041	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	Coproporphyrinogen oxidase.	0.550
ogfod1	bms1	ENSPREP00000001816	ENSPREP00000003768	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	BMS1 ribosome biogenesis factor.	0.556
ogfod1	etf1	ENSPREP00000001816	ENSPREP00000002564	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	Eukaryotic translation termination factor 1b.	0.592
ogfod1	polr3a	ENSPREP00000001816	ENSPREP00000003367	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	DNA-directed RNA polymerase subunit; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.559
ogfod1	rps23	ENSPREP00000001816	ENSPREP00000033728	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	Ribosomal protein S23; Belongs to the universal ribosomal protein uS12 family.	0.611
ogfod1	sycp3	ENSPREP00000001816	ENSPREP00000029907	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	Synaptonemal complex protein 3.	0.944
ogfod1	trmt1	ENSPREP00000001816	ENSPREP00000000264	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	tRNA (guanine(26)-N(2))-dimethyltransferase.	0.569
ogfod1	trmt1l	ENSPREP00000001816	ENSPREP00000004059	2-oxoglutarate and iron-dependent oxygenase domain containing 1.	tRNA methyltransferase 1-like; Belongs to the class I-like SAM-binding methyltransferase superfamily. Trm1 family.	0.569

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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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