LOC101164612 protein (Oryzias latipes) - 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.

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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

LOC101164612

PX domain-containing protein. (430 aa)

Predicted Functional Partners:

gak

0.959

snx4

0.901

snx7

0.844

snx30

0.842

snx6

0.767

snx5

0.765

LOC101173249

0.746

LOC101164413

0.746

vamp2

0.746

vps29

0.738

Your Current Organism:

Oryzias latipes

NCBI taxonomy Id: 8090
Other names: Japanese medaka, Japanese rice fish, O. latipes, Poecilia latipes, medaka

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
LOC101164413	LOC101164612	ENSORLP00000026958	ENSORLP00000016137	Vesicle-associated membrane protein 1.	PX domain-containing protein.	0.746
LOC101164413	LOC101173249	ENSORLP00000026958	ENSORLP00000015396	Vesicle-associated membrane protein 1.	Zgc:92912.	0.546
LOC101164413	gak	ENSORLP00000026958	ENSORLP00000037231	Vesicle-associated membrane protein 1.	Cyclin G associated kinase.	0.954
LOC101164413	snx30	ENSORLP00000026958	ENSORLP00000014546	Vesicle-associated membrane protein 1.	Sorting nexin family member 30.	0.601
LOC101164413	snx4	ENSORLP00000026958	ENSORLP00000020240	Vesicle-associated membrane protein 1.	Sorting nexin 4.	0.746
LOC101164413	snx7	ENSORLP00000026958	ENSORLP00000024006	Vesicle-associated membrane protein 1.	Sorting nexin 7.	0.601
LOC101164413	vamp2	ENSORLP00000026958	ENSORLP00000044147	Vesicle-associated membrane protein 1.	Vesicle-associated membrane protein 2.	0.561
LOC101164612	LOC101164413	ENSORLP00000016137	ENSORLP00000026958	PX domain-containing protein.	Vesicle-associated membrane protein 1.	0.746
LOC101164612	LOC101173249	ENSORLP00000016137	ENSORLP00000015396	PX domain-containing protein.	Zgc:92912.	0.746
LOC101164612	gak	ENSORLP00000016137	ENSORLP00000037231	PX domain-containing protein.	Cyclin G associated kinase.	0.959
LOC101164612	snx30	ENSORLP00000016137	ENSORLP00000014546	PX domain-containing protein.	Sorting nexin family member 30.	0.842
LOC101164612	snx4	ENSORLP00000016137	ENSORLP00000020240	PX domain-containing protein.	Sorting nexin 4.	0.901
LOC101164612	snx5	ENSORLP00000016137	ENSORLP00000014946	PX domain-containing protein.	Sorting nexin 5.	0.765
LOC101164612	snx6	ENSORLP00000016137	ENSORLP00000012931	PX domain-containing protein.	Sorting nexin; Involved in several stages of intracellular trafficking.	0.767
LOC101164612	snx7	ENSORLP00000016137	ENSORLP00000024006	PX domain-containing protein.	Sorting nexin 7.	0.844
LOC101164612	vamp2	ENSORLP00000016137	ENSORLP00000044147	PX domain-containing protein.	Vesicle-associated membrane protein 2.	0.746
LOC101164612	vps29	ENSORLP00000016137	ENSORLP00000022447	PX domain-containing protein.	Vacuolar protein sorting-associated protein 29; Acts as component of the retromer cargo-selective complex (CSC). The CSC is believed to be the core functional component of retromer or respective retromer complex variants acting to prevent missorting of selected transmembrane cargo proteins into the lysosomal degradation pathway.	0.738
LOC101173249	LOC101164413	ENSORLP00000015396	ENSORLP00000026958	Zgc:92912.	Vesicle-associated membrane protein 1.	0.546
LOC101173249	LOC101164612	ENSORLP00000015396	ENSORLP00000016137	Zgc:92912.	PX domain-containing protein.	0.746
LOC101173249	gak	ENSORLP00000015396	ENSORLP00000037231	Zgc:92912.	Cyclin G associated kinase.	0.954

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:

22

PPI enrichment p-value:

2.95e-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

11 of 328

1.8

4.86

1.46e-16

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003735

Structural constituent of ribosome

10 of 159

2.07

6.34

2.75e-17

GO:0019843

rRNA binding

3 of 51

2.05

1.36

0.0024

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005840

Ribosome

10 of 184

2.01

5.98

5.37e-17

GO:0044391

Ribosomal subunit

4 of 135

1.75

1.71

0.00019

GO:0015935

Small ribosomal subunit

3 of 46

2.09

1.69

0.00050

GO:0022627

Cytosolic small ribosomal subunit

2 of 18

2.32

1.12

0.0086

GO:1990904

Ribonucleoprotein complex

5 of 555

1.23

1.04

0.0012

(more ...)

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:28942070

(2017) Ryanodine receptor and FK506 binding protein 1 in the Atlantic killifish (Fundulus heteroclitus): A phylogenetic and population-based comparison.

2 of 9

2.62

0.93

0.0209

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:15235