SMG9 protein (Loxodonta africana) - 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

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:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

SMG9

SMG9 nonsense mediated mRNA decay factor. (521 aa)

Predicted Functional Partners:

SMG8

0.999

SMG1

0.982

SMG5

0.852

SMG6

0.847

SMG7

0.840

PRKDC

0.749

MTOR

0.749

G3U7L3_LOXAF

0.749

UPF1

0.740

G3UN69_LOXAF

0.723

Your Current Organism:

Loxodonta africana

NCBI taxonomy Id: 9785
Other names: African bush elephant, African savanna elephant, African savannah elephant, L. africana, Loxodonta africana africana, elephant

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
G3U7L3_LOXAF	G3UN69_LOXAF	ENSLAFP00000023821	ENSLAFP00000029278	PI3K/PI4K domain-containing protein; Belongs to the PI3/PI4-kinase family.	Uncharacterized protein.	0.655
G3U7L3_LOXAF	PRKDC	ENSLAFP00000023821	ENSLAFP00000009642	PI3K/PI4K domain-containing protein; Belongs to the PI3/PI4-kinase family.	Uncharacterized protein.	0.947
G3U7L3_LOXAF	SMG5	ENSLAFP00000023821	ENSLAFP00000005240	PI3K/PI4K domain-containing protein; Belongs to the PI3/PI4-kinase family.	SMG5 nonsense mediated mRNA decay factor.	0.436
G3U7L3_LOXAF	SMG6	ENSLAFP00000023821	ENSLAFP00000020643	PI3K/PI4K domain-containing protein; Belongs to the PI3/PI4-kinase family.	SMG6 nonsense mediated mRNA decay factor.	0.436
G3U7L3_LOXAF	SMG7	ENSLAFP00000023821	ENSLAFP00000019214	PI3K/PI4K domain-containing protein; Belongs to the PI3/PI4-kinase family.	SMG7 nonsense mediated mRNA decay factor.	0.436
G3U7L3_LOXAF	SMG8	ENSLAFP00000023821	ENSLAFP00000012763	PI3K/PI4K domain-containing protein; Belongs to the PI3/PI4-kinase family.	SMG8 nonsense mediated mRNA decay factor.	0.749
G3U7L3_LOXAF	SMG9	ENSLAFP00000023821	ENSLAFP00000021938	PI3K/PI4K domain-containing protein; Belongs to the PI3/PI4-kinase family.	SMG9 nonsense mediated mRNA decay factor.	0.749
G3U7L3_LOXAF	UPF1	ENSLAFP00000023821	ENSLAFP00000023305	PI3K/PI4K domain-containing protein; Belongs to the PI3/PI4-kinase family.	UPF1 RNA helicase and ATPase.	0.448
G3UN69_LOXAF	G3U7L3_LOXAF	ENSLAFP00000029278	ENSLAFP00000023821	Uncharacterized protein.	PI3K/PI4K domain-containing protein; Belongs to the PI3/PI4-kinase family.	0.655
G3UN69_LOXAF	MTOR	ENSLAFP00000029278	ENSLAFP00000013128	Uncharacterized protein.	Serine/threonine-protein kinase mTOR; Belongs to the PI3/PI4-kinase family.	0.655
G3UN69_LOXAF	PRKDC	ENSLAFP00000029278	ENSLAFP00000009642	Uncharacterized protein.	Uncharacterized protein.	0.655
G3UN69_LOXAF	SMG1	ENSLAFP00000029278	ENSLAFP00000015623	Uncharacterized protein.	SMG1 nonsense mediated mRNA decay associated PI3K related kinase; Belongs to the PI3/PI4-kinase family.	0.975
G3UN69_LOXAF	SMG5	ENSLAFP00000029278	ENSLAFP00000005240	Uncharacterized protein.	SMG5 nonsense mediated mRNA decay factor.	0.779
G3UN69_LOXAF	SMG6	ENSLAFP00000029278	ENSLAFP00000020643	Uncharacterized protein.	SMG6 nonsense mediated mRNA decay factor.	0.824
G3UN69_LOXAF	SMG7	ENSLAFP00000029278	ENSLAFP00000019214	Uncharacterized protein.	SMG7 nonsense mediated mRNA decay factor.	0.779
G3UN69_LOXAF	SMG8	ENSLAFP00000029278	ENSLAFP00000012763	Uncharacterized protein.	SMG8 nonsense mediated mRNA decay factor.	0.698
G3UN69_LOXAF	SMG9	ENSLAFP00000029278	ENSLAFP00000021938	Uncharacterized protein.	SMG9 nonsense mediated mRNA decay factor.	0.723
G3UN69_LOXAF	UPF1	ENSLAFP00000029278	ENSLAFP00000023305	Uncharacterized protein.	UPF1 RNA helicase and ATPase.	0.993
MTOR	G3UN69_LOXAF	ENSLAFP00000013128	ENSLAFP00000029278	Serine/threonine-protein kinase mTOR; Belongs to the PI3/PI4-kinase family.	Uncharacterized protein.	0.655
MTOR	SMG5	ENSLAFP00000013128	ENSLAFP00000005240	Serine/threonine-protein kinase mTOR; Belongs to the PI3/PI4-kinase family.	SMG5 nonsense mediated mRNA decay factor.	0.464

page 1 of 5

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

47

PPI enrichment p-value:

0.0318

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

11 of 309

1.77

4.66

3.02e-16

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003735

Structural constituent of ribosome

10 of 155

2.03

6.04

7.21e-17

GO:0019843

rRNA binding

4 of 43

2.19

2.52

1.03e-05

GO:0003723

RNA binding

6 of 1039

0.98

0.69

0.0076

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005840

Ribosome

10 of 177

1.97

5.71

1.28e-16

GO:0044391

Ribosomal subunit

7 of 130

1.95

3.98

2.21e-10

GO:0015935

Small ribosomal subunit

4 of 48

2.14

2.6

5.79e-06

GO:0022626

Cytosolic ribosome

4 of 52

2.11

2.56

6.27e-06

GO:0015934

Large ribosomal subunit

3 of 81

1.79

1.29

0.0023

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:14887

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

10 of 101

2.22

7.32

1.83e-18

CL:14896

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

9 of 90

2.22

6.89

5.10e-17

CL:14897

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

7 of 78

2.18

5.13

3.18e-12

CL:14902

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

6 of 69

2.16

4.31

4.44e-10

CL:14907

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

4 of 45

2.17

2.72

3.52e-06

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03010

Ribosome

10 of 176

1.98

5.91

1.90e-17

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-72706

GTP hydrolysis and joining of the 60S ribosomal subunit

8 of 108

2.09

5.17

5.36e-13

MAP-72737

Cap-dependent Translation Initiation

8 of 124

2.03

4.94

7.74e-13

MAP-72613

Eukaryotic Translation Initiation

8 of 124

2.03

4.94

7.74e-13

MAP-975956

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

7 of 94

2.09

4.68

1.66e-11

MAP-72689

Formation of a pool of free 40S subunits

7 of 98

2.08

4.63

1.75e-11

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0022626

Cytosolic ribosome

6 of 51

2.29

4.51

4.67e-10

GOCC:0022627

Cytosolic small ribosomal subunit

5 of 25

2.52

4.4

2.82e-09

GOCC:1990904

Ribonucleoprotein complex

6 of 402

1.4

1.66

1.22e-05

GOCC:0043232

Intracellular non-membrane-bounded organelle

7 of 1957

0.78

0.55

0.0066

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0689

Ribosomal protein

5 of 59

2.15

3.44

6.54e-08

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF04758

Ribosomal protein S30

3 of 3

3.22

2.86

6.73e-06

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR006846

Ribosomal protein S30

2 of 2

3.22

1.05

0.0130

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