tmem50b protein (Poecilia reticulata) - STRING interaction network

Nodes:

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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

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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:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

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[Homology]

Score

tmem50b

Uncharacterized protein. (159 aa)

Predicted Functional Partners:

LEPROT

0.867

leprotl1

0.867

gart

0.681

DONSON

0.468

Mrps6

0.468

LOC103462782

0.449

rsrp1

0.434

syf2

0.433

dnajc28

0.430

get1

0.404

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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... functional annotations:

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
DONSON	Mrps6	ENSPREP00000027215	ENSPREP00000034244	Downstream neighbor of SON.	Mitochondrial ribosomal protein S6.	0.596
DONSON	gart	ENSPREP00000027215	ENSPREP00000009460	Downstream neighbor of SON.	Trifunctional purine biosynthetic protein adenosine-3; In the C-terminal section; belongs to the GART family. In the central section; belongs to the AIR synthase family.	0.759
DONSON	tmem50b	ENSPREP00000027215	ENSPREP00000027780	Downstream neighbor of SON.	Uncharacterized protein.	0.468
LEPROT	tmem50b	ENSPREP00000007301	ENSPREP00000027780	Leptin receptor overlapping transcript.	Uncharacterized protein.	0.867
LOC103462782	get1	ENSPREP00000015935	ENSPREP00000024111	GC-rich sequence DNA-binding factor 2.	Guided entry of tail-anchored proteins factor 1.	0.403
LOC103462782	syf2	ENSPREP00000015935	ENSPREP00000004254	GC-rich sequence DNA-binding factor 2.	SYF2 pre-mRNA-splicing factor.	0.734
LOC103462782	tmem50b	ENSPREP00000015935	ENSPREP00000027780	GC-rich sequence DNA-binding factor 2.	Uncharacterized protein.	0.449
Mrps6	DONSON	ENSPREP00000034244	ENSPREP00000027215	Mitochondrial ribosomal protein S6.	Downstream neighbor of SON.	0.596
Mrps6	gart	ENSPREP00000034244	ENSPREP00000009460	Mitochondrial ribosomal protein S6.	Trifunctional purine biosynthetic protein adenosine-3; In the C-terminal section; belongs to the GART family. In the central section; belongs to the AIR synthase family.	0.740
Mrps6	tmem50b	ENSPREP00000034244	ENSPREP00000027780	Mitochondrial ribosomal protein S6.	Uncharacterized protein.	0.468
dnajc28	tmem50b	ENSPREP00000024203	ENSPREP00000027780	DnaJ (Hsp40) homolog, subfamily C, member 28.	Uncharacterized protein.	0.430
gart	DONSON	ENSPREP00000009460	ENSPREP00000027215	Trifunctional purine biosynthetic protein adenosine-3; In the C-terminal section; belongs to the GART family. In the central section; belongs to the AIR synthase family.	Downstream neighbor of SON.	0.759
gart	Mrps6	ENSPREP00000009460	ENSPREP00000034244	Trifunctional purine biosynthetic protein adenosine-3; In the C-terminal section; belongs to the GART family. In the central section; belongs to the AIR synthase family.	Mitochondrial ribosomal protein S6.	0.740
gart	get1	ENSPREP00000009460	ENSPREP00000024111	Trifunctional purine biosynthetic protein adenosine-3; In the C-terminal section; belongs to the GART family. In the central section; belongs to the AIR synthase family.	Guided entry of tail-anchored proteins factor 1.	0.681
gart	tmem50b	ENSPREP00000009460	ENSPREP00000027780	Trifunctional purine biosynthetic protein adenosine-3; In the C-terminal section; belongs to the GART family. In the central section; belongs to the AIR synthase family.	Uncharacterized protein.	0.681
get1	LOC103462782	ENSPREP00000024111	ENSPREP00000015935	Guided entry of tail-anchored proteins factor 1.	GC-rich sequence DNA-binding factor 2.	0.403
get1	gart	ENSPREP00000024111	ENSPREP00000009460	Guided entry of tail-anchored proteins factor 1.	Trifunctional purine biosynthetic protein adenosine-3; In the C-terminal section; belongs to the GART family. In the central section; belongs to the AIR synthase family.	0.681
get1	tmem50b	ENSPREP00000024111	ENSPREP00000027780	Guided entry of tail-anchored proteins factor 1.	Uncharacterized protein.	0.404
leprotl1	tmem50b	ENSPREP00000009237	ENSPREP00000027780	Leptin receptor overlapping transcript like 1.	Uncharacterized protein.	0.867
rsrp1	syf2	ENSPREP00000004274	ENSPREP00000004254	Arginine/serine-rich protein 1.	SYF2 pre-mRNA-splicing factor.	0.549

page 1 of 2

Network Stats

number of nodes:

11

number of edges:

41

average node degree:

7.45

avg. local clustering coefficient:

0.869

expected number of edges:

13

PPI enrichment p-value:

2.15e-10

your network has 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:0000077

DNA damage checkpoint signaling

7 of 79

2.27

5.21

6.50e-12

GO:0044773

Mitotic DNA damage checkpoint signaling

6 of 63

2.3

4.64

2.28e-10

GO:0071479

Cellular response to ionizing radiation

5 of 38

2.44

4.27

3.82e-09

GO:0007095

Mitotic G2 DNA damage checkpoint signaling

5 of 41

2.4

4.2

4.66e-09

GO:0006281

DNA repair

10 of 415

1.7

3.87

1.94e-13

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030870

Mre11 complex

3 of 3

3.32

3.31

1.04e-06

GO:0000781

Chromosome, telomeric region

4 of 56

2.17

2.62

5.85e-06

GO:0031436

BRCA1-BARD1 complex

2 of 3

3.14

2.02

0.00022

GO:0000794

Condensed nuclear chromosome

3 of 49

2.1

1.87

0.00021

GO:0035861

Site of double-strand break

3 of 52

2.08

1.86

0.00022

(more ...)

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:32796846

(2020) A scalable CRISPRCas9-based fluorescent reporter assay to study DNA double-strand break repair choice.

3 of 25

2.4

1.95

0.00022

PMID:38102134

(2023) Whole-genome sequencing reveals the molecular implications of the stepwise progression of lung adenocarcinoma.

3 of 42

2.17

1.73

0.00048

PMID:33742045

(2021) Short and long-read genome sequencing methodologies for somatic variant detection; genomic analysis of a patient with diffuse large B-cell lymphoma.

2 of 11

2.58

1.28

0.0045

PMID:37627523

(2023) Natural Acetogenins, Chatenaytrienins-1, -2, -3 and -4, Mitochondrial Potential Uncouplers and Autophagy Inducers-Promising Anticancer Agents.

2 of 36

2.06

0.81

0.0301

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:7103

Mixed, incl. Mre11 complex, and BRCA1-BARD1 complex

9 of 11

3.23

12.3

9.80e-24

CL:7105

Mre11 complex, and Flap-structured DNA binding

4 of 5

3.22

4.77

2.02e-09

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

pret03440

Homologous recombination

5 of 27

2.59

5.06

1.47e-10

pret04218

Cellular senescence

8 of 178

1.97

4.81

4.42e-13

pret04115

p53 signaling pathway

5 of 78

2.12

3.67

1.40e-08

pret04110

Cell cycle

5 of 120

1.94

3.11

8.41e-08

pret03450

Non-homologous end-joining

2 of 11

2.58

1.77

0.00054

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-69473

G2/M DNA damage checkpoint

10 of 101

2.31

8.16

8.73e-20

MAP-6804756

Regulation of TP53 Activity through Phosphorylation

10 of 125

2.22

7.56

3.33e-19

MAP-5685938

HDR through Single Strand Annealing (SSA)

7 of 45

2.51

6.75

1.61e-14

MAP-5693616

Presynaptic phase of homologous DNA pairing and strand exchange

6 of 24

2.72

6.57

1.91e-13

MAP-5693579

Homologous DNA Pairing and Strand Exchange

6 of 26

2.68

6.48

2.49e-13

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0030870

Mre11 complex

4 of 5

3.22

4.53

5.58e-09

GOCC:0031436

BRCA1-BARD1 complex

2 of 5

2.92

1.46

0.0023

GOCC:0070531

BRCA1-A complex

2 of 15

2.44

1.12

0.0087

GOCC:0005634

Nucleus

10 of 3523

0.77

0.71

5.55e-05

GOCC:0043229

Intracellular organelle

11 of 9083

0.4

0.31

0.0100

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0227

DNA damage

2 of 27

2.19

0.84

0.0283

KW-0723

Serine/threonine-protein kinase

3 of 233

1.43

0.73

0.0283

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF02259

FAT domain

2 of 4

3.02

1.19

0.0072

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR036420

BRCT domain superfamily

4 of 27

2.49

2.75

6.43e-06

IPR001357

BRCT domain

3 of 23

2.43

1.68

0.00076

IPR003151

PIK-related kinase, FAT

2 of 4

3.02

1.18

0.0075

IPR014009

PIK-related kinase

2 of 5

2.92

1.17

0.0078

IPR003152

FATC domain

2 of 6

2.84

1.15

0.0083

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00292

Breast cancer carboxy-terminal domain

4 of 22

2.58

3.42

3.35e-07

SM01343

The FATC domain is named after FRAP, ATM, TRRAP C-terminal (PMID:10782091). The solution structure of the FATC domain suggests it plays a role in redox-dependent structural and cellular stability (PMID:15772072).

2 of 6

2.84

1.45

0.0023

SM00240

Forkhead associated domain

2 of 27

2.19

0.89

0.0220

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