LOC101158556 protein (Oryzias latipes) - 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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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:

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Gene Fusion

Cooccurrence

Coexpression

Experiments

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[Homology]

Score

LOC101158556

Uncharacterized protein. (294 aa)

Predicted Functional Partners:

mecr

0.904

acsl3

0.660

LOC101172360

0.660

acsl4

0.660

acsl1

0.652

acsbg2

0.652

LOC101168717

0.652

LOC101166257

0.652

LOC101163681

0.652

LOC101158282

0.652

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
LOC101158282	LOC101158556	ENSORLP00000042406	ENSORLP00000019974	AMP-binding domain-containing protein.	Uncharacterized protein.	0.652
LOC101158282	LOC101163681	ENSORLP00000042406	ENSORLP00000029746	AMP-binding domain-containing protein.	AMP-binding domain-containing protein.	0.669
LOC101158282	LOC101166257	ENSORLP00000042406	ENSORLP00000026620	AMP-binding domain-containing protein.	Acyl-CoA synthetase long chain family member 5.	0.668
LOC101158282	LOC101168717	ENSORLP00000042406	ENSORLP00000013843	AMP-binding domain-containing protein.	Acyl-CoA synthetase long chain family member 2.	0.672
LOC101158282	LOC101172360	ENSORLP00000042406	ENSORLP00000019921	AMP-binding domain-containing protein.	Acyl-CoA synthetase long chain family member 3b.	0.773
LOC101158282	acsbg2	ENSORLP00000042406	ENSORLP00000011582	AMP-binding domain-containing protein.	Acyl-CoA synthetase bubblegum family member 2.	0.608
LOC101158282	acsl1	ENSORLP00000042406	ENSORLP00000010861	AMP-binding domain-containing protein.	Acyl-CoA synthetase long chain family member 1b.	0.672
LOC101158282	acsl3	ENSORLP00000042406	ENSORLP00000011555	AMP-binding domain-containing protein.	Uncharacterized protein.	0.774
LOC101158282	acsl4	ENSORLP00000042406	ENSORLP00000039507	AMP-binding domain-containing protein.	Acyl-CoA synthetase long chain family member 4a.	0.772
LOC101158556	LOC101158282	ENSORLP00000019974	ENSORLP00000042406	Uncharacterized protein.	AMP-binding domain-containing protein.	0.652
LOC101158556	LOC101163681	ENSORLP00000019974	ENSORLP00000029746	Uncharacterized protein.	AMP-binding domain-containing protein.	0.652
LOC101158556	LOC101166257	ENSORLP00000019974	ENSORLP00000026620	Uncharacterized protein.	Acyl-CoA synthetase long chain family member 5.	0.652
LOC101158556	LOC101168717	ENSORLP00000019974	ENSORLP00000013843	Uncharacterized protein.	Acyl-CoA synthetase long chain family member 2.	0.652
LOC101158556	LOC101172360	ENSORLP00000019974	ENSORLP00000019921	Uncharacterized protein.	Acyl-CoA synthetase long chain family member 3b.	0.660
LOC101158556	acsbg2	ENSORLP00000019974	ENSORLP00000011582	Uncharacterized protein.	Acyl-CoA synthetase bubblegum family member 2.	0.652
LOC101158556	acsl1	ENSORLP00000019974	ENSORLP00000010861	Uncharacterized protein.	Acyl-CoA synthetase long chain family member 1b.	0.652
LOC101158556	acsl3	ENSORLP00000019974	ENSORLP00000011555	Uncharacterized protein.	Uncharacterized protein.	0.660
LOC101158556	acsl4	ENSORLP00000019974	ENSORLP00000039507	Uncharacterized protein.	Acyl-CoA synthetase long chain family member 4a.	0.660
LOC101158556	mecr	ENSORLP00000019974	ENSORLP00000017989	Uncharacterized protein.	Mitochondrial trans-2-enoyl-CoA reductase.	0.904
LOC101163681	LOC101158282	ENSORLP00000029746	ENSORLP00000042406	AMP-binding domain-containing protein.	AMP-binding domain-containing protein.	0.669

page 1 of 5

Network Stats

number of nodes:

10

number of edges:

16

average node degree:

3.2

avg. local clustering coefficient:

0.919

expected number of edges:

9

PPI enrichment p-value:

0.0286

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:0042147

Retrograde transport, endosome to Golgi

4 of 87

1.96

1.48

0.0014

GO:0072673

Lamellipodium morphogenesis

2 of 7

2.75

0.85

0.0326

GO:0034498

Early endosome to Golgi transport

2 of 9

2.64

0.8

0.0399

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005158

Insulin receptor binding

3 of 23

2.41

1.62

0.0012

GO:1990460

Leptin receptor binding

2 of 4

2.99

1.18

0.0086

GO:1990459

Transferrin receptor binding

2 of 11

2.55

0.94

0.0222

GO:0034452

Dynactin binding

2 of 12

2.52

0.94

0.0222

GO:0035091

Phosphatidylinositol binding

4 of 270

1.47

0.9

0.0118

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030905

Retromer, tubulation complex

4 of 4

3.29

4.72

4.78e-09

GO:0097422

Tubular endosome

2 of 5

2.9

1.48

0.0025

GO:0031901

Early endosome membrane

4 of 180

1.64

1.4

0.0010

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:11485546

(2001) A large family of endosome-localized proteins related to sorting nexin 1.

4 of 6

3.12

2.53

3.54e-05

PMID:24866125

(2014) Rapid mapping of interactions between Human SNX-BAR proteins measured in vitro by AlphaScreen and single-molecule spectroscopy.

4 of 9

2.94

2.49

4.01e-05

PMID:24735875

(2014) Going forward with retromer.

4 of 9

2.94

2.49

4.01e-05

PMID:18472259

(2008) Retromer.

4 of 9

2.94

2.49

4.01e-05

PMID:31576058

(2019) Molecular identification of a BAR domain-containing coat complex for endosomal recycling of transmembrane proteins.

5 of 38

2.41

2.42

3.54e-05

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:14014

Retromer, tubulation complex

4 of 5

3.2

4.37

1.92e-08

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

hsa04144

Endocytosis

4 of 241

1.51

1.24

0.0016

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0030905

Retromer, tubulation complex

4 of 4

3.29

4.69

5.38e-09

GOCC:0097422

Tubular endosome

2 of 5

2.9

1.39

0.0037

GOCC:0010008

Endosome membrane

4 of 330

1.38

0.91

0.0090

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0446

Lipid-binding

4 of 251

1.5

1.11

0.0036

KW-0967

Endosome

4 of 568

1.14

0.59

0.0431

KW-0653

Protein transport

4 of 617

1.11

0.57

0.0431

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF09325

Vps5 C terminal like

4 of 5

3.2

4.53

9.72e-09

PF03700

Sorting nexin, N-terminal domain

2 of 2

3.29

1.6

0.0016

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR015404

Sorting nexin/Vps5-like, C-terminal

4 of 5

3.2

4.26

3.02e-08

IPR001683

Phox homology

4 of 46

2.23

2.41

2.73e-05

IPR036871

PX domain superfamily

4 of 51

2.19

2.38

2.73e-05

IPR027267

AH/BAR domain superfamily

4 of 77

2.01

2.03

9.80e-05

IPR005329

Sorting nexin, N-terminal

2 of 2

3.29

1.55

0.0020

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00312

PhoX homologous domain, present in p47phox and p40phox.

3 of 42

2.15

1.59

0.0011

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