lrtm2 protein (Takifugu rubripes) - 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

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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

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Score

lrtm2

Leucine-rich repeats and transmembrane domains 2a. (390 aa)

Predicted Functional Partners:

pitx1

0.652

LOC101070153

0.574

adgrl2

0.574

adgrl1

0.574

ENSTRUP00000061068

0.568

ENSTRUP00000062576

0.568

ADGRL3

0.568

LOC105418305

0.568

LOC105418305-2

0.568

LOC101073538

0.568

Your Current Organism:

Takifugu rubripes

NCBI taxonomy Id: 31033
Other names: Fugu rubripes, Sphaeroides rubripes, T. rubripes, Tetraodon rubripes, tiger puffer, torafugu

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ADGRL3	lrtm2	ENSTRUP00000065854	ENSTRUP00000042064	Uncharacterized protein; Belongs to the G-protein coupled receptor 2 family.	Leucine-rich repeats and transmembrane domains 2a.	0.568
ENSTRUP00000061068	lrtm2	ENSTRUP00000061068	ENSTRUP00000042064	annotation not available	Leucine-rich repeats and transmembrane domains 2a.	0.568
ENSTRUP00000062576	lrtm2	ENSTRUP00000062576	ENSTRUP00000042064	annotation not available	Leucine-rich repeats and transmembrane domains 2a.	0.568
LOC101070153	lrtm2	ENSTRUP00000025145	ENSTRUP00000042064	Si:ch1073-186i23.1; Belongs to the G-protein coupled receptor 2 family.	Leucine-rich repeats and transmembrane domains 2a.	0.574
LOC101073538	lrtm2	ENSTRUP00000081873	ENSTRUP00000042064	SUEL-type lectin domain-containing protein.	Leucine-rich repeats and transmembrane domains 2a.	0.568
LOC105418305	lrtm2	ENSTRUP00000067331	ENSTRUP00000042064	Adhesion G protein-coupled receptor L3.1; Belongs to the G-protein coupled receptor 2 family.	Leucine-rich repeats and transmembrane domains 2a.	0.568
LOC105418305-2	lrtm2	ENSTRUP00000067538	ENSTRUP00000042064	Adhesion G protein-coupled receptor L3-like.	Leucine-rich repeats and transmembrane domains 2a.	0.568
adgrl1	lrtm2	ENSTRUP00000082451	ENSTRUP00000042064	Adhesion G protein-coupled receptor L1a; Belongs to the G-protein coupled receptor 2 family.	Leucine-rich repeats and transmembrane domains 2a.	0.574
adgrl2	lrtm2	ENSTRUP00000070338	ENSTRUP00000042064	Adhesion G protein-coupled receptor L2a; Belongs to the G-protein coupled receptor 2 family.	Leucine-rich repeats and transmembrane domains 2a.	0.574
lrtm2	ADGRL3	ENSTRUP00000042064	ENSTRUP00000065854	Leucine-rich repeats and transmembrane domains 2a.	Uncharacterized protein; Belongs to the G-protein coupled receptor 2 family.	0.568
lrtm2	ENSTRUP00000061068	ENSTRUP00000042064	ENSTRUP00000061068	Leucine-rich repeats and transmembrane domains 2a.	annotation not available	0.568
lrtm2	ENSTRUP00000062576	ENSTRUP00000042064	ENSTRUP00000062576	Leucine-rich repeats and transmembrane domains 2a.	annotation not available	0.568
lrtm2	LOC101070153	ENSTRUP00000042064	ENSTRUP00000025145	Leucine-rich repeats and transmembrane domains 2a.	Si:ch1073-186i23.1; Belongs to the G-protein coupled receptor 2 family.	0.574
lrtm2	LOC101073538	ENSTRUP00000042064	ENSTRUP00000081873	Leucine-rich repeats and transmembrane domains 2a.	SUEL-type lectin domain-containing protein.	0.568
lrtm2	LOC105418305	ENSTRUP00000042064	ENSTRUP00000067331	Leucine-rich repeats and transmembrane domains 2a.	Adhesion G protein-coupled receptor L3.1; Belongs to the G-protein coupled receptor 2 family.	0.568
lrtm2	LOC105418305-2	ENSTRUP00000042064	ENSTRUP00000067538	Leucine-rich repeats and transmembrane domains 2a.	Adhesion G protein-coupled receptor L3-like.	0.568
lrtm2	adgrl1	ENSTRUP00000042064	ENSTRUP00000082451	Leucine-rich repeats and transmembrane domains 2a.	Adhesion G protein-coupled receptor L1a; Belongs to the G-protein coupled receptor 2 family.	0.574
lrtm2	adgrl2	ENSTRUP00000042064	ENSTRUP00000070338	Leucine-rich repeats and transmembrane domains 2a.	Adhesion G protein-coupled receptor L2a; Belongs to the G-protein coupled receptor 2 family.	0.574
lrtm2	pitx1	ENSTRUP00000042064	ENSTRUP00000048962	Leucine-rich repeats and transmembrane domains 2a.	Homeobox protein.	0.652
pitx1	lrtm2	ENSTRUP00000048962	ENSTRUP00000042064	Homeobox protein.	Leucine-rich repeats and transmembrane domains 2a.	0.652

Network Stats

number of nodes:

11

number of edges:

35

average node degree:

6.36

avg. local clustering coefficient:

0.741

expected number of edges:

11

PPI enrichment p-value:

2.54e-09

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:0006412

Translation

8 of 333

1.67

2.93

4.87e-09

GO:0006414

Translational elongation

3 of 37

2.2

1.67

0.00064

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003735

Structural constituent of ribosome

7 of 163

1.92

3.66

1.48e-09

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005840

Ribosome

8 of 190

1.91

4.27

9.38e-12

GO:0044391

Ribosomal subunit

4 of 140

1.74

1.58

0.00039

GO:0022626

Cytosolic ribosome

3 of 55

2.03

1.48

0.0013

GO:0022625

Cytosolic large ribosomal subunit

2 of 33

2.07

0.82

0.0294

GO:0015935

Small ribosomal subunit

2 of 49

1.9

0.7

0.0471

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:26482678

(2015) Analysis of 5 gene regions reveals extraordinary conservation of novel non-coding sequences in a wide range of animals.

2 of 3

3.11

1.19

0.0073

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:3783

Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)

11 of 103

2.32

8.97

2.80e-22

CL:3812

Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)

8 of 65

2.38

6.97

8.59e-16

CL:3814

Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)

6 of 59

2.3

4.84

7.35e-11

CL:3815

Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)

5 of 54

2.26

3.82

1.50e-08

CL:3977

Eukaryotic Translation Elongation, and Translation release factor complex

3 of 6

2.99

3.12

1.98e-06

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

tru03010

Ribosome

5 of 110

1.95

2.93

3.07e-07

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-975956

Nonsense Mediated Decay (NMD) independent of the Exon Junction Complex (EJC)

7 of 100

2.13

4.77

1.72e-11

MAP-72689

Formation of a pool of free 40S subunits

7 of 103

2.12

4.74

1.72e-11

MAP-1799339

SRP-dependent cotranslational protein targeting to membrane

7 of 111

2.09

4.66

1.74e-11

MAP-72706

GTP hydrolysis and joining of the 60S ribosomal subunit

7 of 121

2.05

4.52

2.49e-11

MAP-975957

Nonsense Mediated Decay (NMD) enhanced by the Exon Junction Complex (EJC)

7 of 123

2.04

4.5

2.49e-11

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0022626

Cytosolic ribosome

4 of 53

2.17

2.57

7.41e-06

GOCC:0022625

Cytosolic large ribosomal subunit

3 of 15

2.59

2.42

3.10e-05

GOCC:0005840

Ribosome

5 of 149

1.81

2.31

6.09e-06

GOCC:1990904

Ribonucleoprotein complex

7 of 437

1.49

2.08

7.33e-07

GOCC:0044391

Ribosomal subunit

4 of 117

1.82

1.88

9.40e-05

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0689

Ribosomal protein

4 of 52

2.17

2.67

4.56e-06

KW-0251

Elongation factor

2 of 11

2.55

1.46

0.0021

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF00428

60s Acidic ribosomal protein

2 of 3

3.11

1.25

0.0055

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