pde12 protein (Betta splendens) - STRING interaction network

Nodes:

Network nodes represent proteins

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

Node Color

colored nodes:
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

pde12

Phosphodiesterase 12. (587 aa)

Predicted Functional Partners:

cnot1

0.961

cnot9

0.960

cdc73

0.950

paf1

0.945

cnot4

0.925

CNOT8

0.864

LOC114864120

0.864

CNOT3

0.861

cnot3

0.861

CNOT2

0.860

Your Current Organism:

Betta splendens

NCBI taxonomy Id: 158456
Other names: B. splendens, Siamese fighting fish

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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
CNOT2	CNOT3	ENSBSLP00000003008	ENSBSLP00000038412	CCR4-NOT transcription complex subunit 2.	CCR4-NOT transcription complex subunit 3-like.	0.981
CNOT2	CNOT8	ENSBSLP00000003008	ENSBSLP00000016239	CCR4-NOT transcription complex subunit 2.	CCR4-NOT transcription complex subunit 8.	0.983
CNOT2	LOC114864120	ENSBSLP00000003008	ENSBSLP00000016746	CCR4-NOT transcription complex subunit 2.	CCR4-NOT transcription complex subunit 7.	0.983
CNOT2	cnot1	ENSBSLP00000003008	ENSBSLP00000001303	CCR4-NOT transcription complex subunit 2.	CCR4-NOT transcription complex subunit 1.	0.989
CNOT2	cnot3	ENSBSLP00000003008	ENSBSLP00000038860	CCR4-NOT transcription complex subunit 2.	CCR4-NOT transcription complex subunit 3.	0.981
CNOT2	cnot4	ENSBSLP00000003008	ENSBSLP00000042792	CCR4-NOT transcription complex subunit 2.	CCR4-NOT transcription complex subunit 4.	0.986
CNOT2	cnot9	ENSBSLP00000003008	ENSBSLP00000014872	CCR4-NOT transcription complex subunit 2.	CCR4-NOT transcription complex subunit 9.	0.989
CNOT2	pde12	ENSBSLP00000003008	ENSBSLP00000006475	CCR4-NOT transcription complex subunit 2.	Phosphodiesterase 12.	0.860
CNOT3	CNOT2	ENSBSLP00000038412	ENSBSLP00000003008	CCR4-NOT transcription complex subunit 3-like.	CCR4-NOT transcription complex subunit 2.	0.981
CNOT3	CNOT8	ENSBSLP00000038412	ENSBSLP00000016239	CCR4-NOT transcription complex subunit 3-like.	CCR4-NOT transcription complex subunit 8.	0.992
CNOT3	LOC114864120	ENSBSLP00000038412	ENSBSLP00000016746	CCR4-NOT transcription complex subunit 3-like.	CCR4-NOT transcription complex subunit 7.	0.992
CNOT3	cnot1	ENSBSLP00000038412	ENSBSLP00000001303	CCR4-NOT transcription complex subunit 3-like.	CCR4-NOT transcription complex subunit 1.	0.995
CNOT3	cnot3	ENSBSLP00000038412	ENSBSLP00000038860	CCR4-NOT transcription complex subunit 3-like.	CCR4-NOT transcription complex subunit 3.	0.935
CNOT3	cnot4	ENSBSLP00000038412	ENSBSLP00000042792	CCR4-NOT transcription complex subunit 3-like.	CCR4-NOT transcription complex subunit 4.	0.994
CNOT3	cnot9	ENSBSLP00000038412	ENSBSLP00000014872	CCR4-NOT transcription complex subunit 3-like.	CCR4-NOT transcription complex subunit 9.	0.995
CNOT3	pde12	ENSBSLP00000038412	ENSBSLP00000006475	CCR4-NOT transcription complex subunit 3-like.	Phosphodiesterase 12.	0.861
CNOT8	CNOT2	ENSBSLP00000016239	ENSBSLP00000003008	CCR4-NOT transcription complex subunit 8.	CCR4-NOT transcription complex subunit 2.	0.983
CNOT8	CNOT3	ENSBSLP00000016239	ENSBSLP00000038412	CCR4-NOT transcription complex subunit 8.	CCR4-NOT transcription complex subunit 3-like.	0.992
CNOT8	LOC114864120	ENSBSLP00000016239	ENSBSLP00000016746	CCR4-NOT transcription complex subunit 8.	CCR4-NOT transcription complex subunit 7.	0.926
CNOT8	cnot1	ENSBSLP00000016239	ENSBSLP00000001303	CCR4-NOT transcription complex subunit 8.	CCR4-NOT transcription complex subunit 1.	0.996

page 1 of 4

Network Stats

number of nodes:

11

number of edges:

45

average node degree:

8.18

avg. local clustering coefficient:

0.962

expected number of edges:

10

PPI enrichment p-value:

1.55e-15

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:0031204

Post-translational protein targeting to membrane, translocation

4 of 6

3.28

4.69

2.97e-09

GO:0045047

Protein targeting to ER

5 of 28

2.7

4.55

2.49e-09

GO:0006612

Protein targeting to membrane

5 of 51

2.44

4.16

6.70e-09

GO:0006614

SRP-dependent cotranslational protein targeting to membrane

4 of 17

2.82

3.98

4.00e-08

GO:0006616

SRP-dependent cotranslational protein targeting to membrane, translocation

3 of 5

3.23

3.36

8.22e-07

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0043022

Ribosome binding

4 of 61

2.27

2.52

1.25e-05

GO:0008320

Protein transmembrane transporter activity

2 of 13

2.64

1.13

0.0088

GO:0019838

Growth factor binding

2 of 18

2.5

1.12

0.0088

GO:0042562

Hormone binding

2 of 26

2.34

1.04

0.0119

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0140534

Endoplasmic reticulum protein-containing complex

7 of 74

2.43

6.44

3.60e-14

GO:0071256

Translocon complex

4 of 4

3.45

5.6

7.00e-11

GO:0005789

Endoplasmic reticulum membrane

11 of 581

1.73

4.5

1.14e-16

GO:0005784

Sec61 translocon complex

3 of 3

3.45

4.0

5.84e-08

GO:0008250

Oligosaccharyltransferase complex

3 of 10

2.93

3.38

6.25e-07

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:31634

Oligosaccharyltransferase complex, and Post-translational protein targeting to membrane, translocation

10 of 24

3.07

13.33

2.63e-26

CL:31636

Oligosaccharyltransferase complex, and Translocon-associated

8 of 18

3.1

10.68

7.22e-21

CL:31661

Mixed, incl. Sec61beta family, and Translocon-associated

5 of 5

3.45

6.95

2.28e-13

CL:31638

Oligosaccharyltransferase complex

3 of 11

2.89

5.12e-06

CL:31641

Oligosaccharyltransferase complex

2 of 5

3.05

1.68

0.00093

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map04141

Protein processing in endoplasmic reticulum

10 of 303

1.97

5.9

1.62e-17

map03060

Protein export

4 of 39

2.46

3.66

8.41e-08

map04145

Phagosome

4 of 151

1.87

2.29

1.03e-05

map00510

N-Glycan biosynthesis

2 of 71

1.9

0.99

0.0120

map00513

Various types of N-glycan biosynthesis

2 of 80

1.85

0.98

0.0121

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-1799339

SRP-dependent cotranslational protein targeting to membrane

6 of 115

2.17

4.09

1.80e-09

MAP-9609523

Insertion of tail-anchored proteins into the endoplasmic reticulum membrane

3 of 17

2.7

2.59

1.62e-05

MAP-72766

Translation

6 of 322

1.72

2.56

3.76e-07

MAP-9609507

Protein localization

3 of 210

1.61

0.87

0.0163

MAP-392499

Metabolism of proteins

6 of 2399

0.85

0.54

0.0181

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0071256

Translocon complex

5 of 6

3.37

6.9

2.69e-13

GOCC:0005789

Endoplasmic reticulum membrane

9 of 199

2.11

6.09

7.43e-16

GOCC:0005784

Sec61 translocon complex

4 of 5

3.35

5.38

1.69e-10

GOCC:0005783

Endoplasmic reticulum

10 of 354

1.9

5.24

5.63e-16

GOCC:0098796

Membrane protein complex

8 of 516

1.64

3.15

1.69e-10

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0256

Endoplasmic reticulum

4 of 61

2.27

2.93

1.65e-06

KW-0811

Translocation

2 of 13

2.64

1.72

0.00069

KW-1133

Transmembrane helix

10 of 6441

0.64

0.55

0.00019

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF03911

Sec61beta family

2 of 2

3.45

1.62

0.0012

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR030671

Protein transport Sec61-beta/Sbh

2 of 2

3.45

1.37

0.0035

IPR016482

Protein transport protein SecG/Sec61-beta/Sbh

2 of 2

3.45

1.37

0.0035

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