lrrc58 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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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

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[Homology]

Score

lrrc58

Leucine rich repeat containing 58b. (352 aa)

Predicted Functional Partners:

ENSORLP00000029994

0.652

ENSORLP00000028654

0.590

ENSORLP00000034371

0.590

LOC101172768

0.590

adgrl2

0.590

LOC101166443

0.590

LOC101161954

0.590

adgrl1

0.590

ADGRL3

0.590

cpn2

0.559

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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structured XML interaction data, according to the 'PSI-MI' data standard

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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
ADGRL3	cpn2	ENSORLP00000045698	ENSORLP00000005752	Adhesion G protein-coupled receptor L3; Belongs to the G-protein coupled receptor 2 family.	LRRCT domain-containing protein.	0.590
ADGRL3	lrrc58	ENSORLP00000045698	ENSORLP00000022461	Adhesion G protein-coupled receptor L3; Belongs to the G-protein coupled receptor 2 family.	Leucine rich repeat containing 58b.	0.590
ENSORLP00000028654	cpn2	ENSORLP00000028654	ENSORLP00000005752	SUEL-type lectin domain-containing protein.	LRRCT domain-containing protein.	0.590
ENSORLP00000028654	lrrc58	ENSORLP00000028654	ENSORLP00000022461	SUEL-type lectin domain-containing protein.	Leucine rich repeat containing 58b.	0.590
ENSORLP00000029994	lrrc58	ENSORLP00000029994	ENSORLP00000022461	CCDC92 domain-containing protein.	Leucine rich repeat containing 58b.	0.652
ENSORLP00000034371	cpn2	ENSORLP00000034371	ENSORLP00000005752	SUEL-type lectin domain-containing protein.	LRRCT domain-containing protein.	0.590
ENSORLP00000034371	lrrc58	ENSORLP00000034371	ENSORLP00000022461	SUEL-type lectin domain-containing protein.	Leucine rich repeat containing 58b.	0.590
LOC101161954	cpn2	ENSORLP00000040454	ENSORLP00000005752	Uncharacterized protein; Belongs to the G-protein coupled receptor 2 family.	LRRCT domain-containing protein.	0.590
LOC101161954	lrrc58	ENSORLP00000040454	ENSORLP00000022461	Uncharacterized protein; Belongs to the G-protein coupled receptor 2 family.	Leucine rich repeat containing 58b.	0.590
LOC101166443	cpn2	ENSORLP00000038353	ENSORLP00000005752	Adhesion G protein-coupled receptor L3.1; Belongs to the G-protein coupled receptor 2 family.	LRRCT domain-containing protein.	0.590
LOC101166443	lrrc58	ENSORLP00000038353	ENSORLP00000022461	Adhesion G protein-coupled receptor L3.1; Belongs to the G-protein coupled receptor 2 family.	Leucine rich repeat containing 58b.	0.590
LOC101172768	cpn2	ENSORLP00000035993	ENSORLP00000005752	Si:ch1073-186i23.1; Belongs to the G-protein coupled receptor 2 family.	LRRCT domain-containing protein.	0.590
LOC101172768	lrrc58	ENSORLP00000035993	ENSORLP00000022461	Si:ch1073-186i23.1; Belongs to the G-protein coupled receptor 2 family.	Leucine rich repeat containing 58b.	0.590
adgrl1	cpn2	ENSORLP00000044181	ENSORLP00000005752	Adhesion G protein-coupled receptor L1a; Belongs to the G-protein coupled receptor 2 family.	LRRCT domain-containing protein.	0.590
adgrl1	lrrc58	ENSORLP00000044181	ENSORLP00000022461	Adhesion G protein-coupled receptor L1a; Belongs to the G-protein coupled receptor 2 family.	Leucine rich repeat containing 58b.	0.590
adgrl2	cpn2	ENSORLP00000037587	ENSORLP00000005752	Adhesion G protein-coupled receptor L2a; Belongs to the G-protein coupled receptor 2 family.	LRRCT domain-containing protein.	0.590
adgrl2	lrrc58	ENSORLP00000037587	ENSORLP00000022461	Adhesion G protein-coupled receptor L2a; Belongs to the G-protein coupled receptor 2 family.	Leucine rich repeat containing 58b.	0.590
cpn2	ADGRL3	ENSORLP00000005752	ENSORLP00000045698	LRRCT domain-containing protein.	Adhesion G protein-coupled receptor L3; Belongs to the G-protein coupled receptor 2 family.	0.590
cpn2	ENSORLP00000028654	ENSORLP00000005752	ENSORLP00000028654	LRRCT domain-containing protein.	SUEL-type lectin domain-containing protein.	0.590
cpn2	ENSORLP00000034371	ENSORLP00000005752	ENSORLP00000034371	LRRCT domain-containing protein.	SUEL-type lectin domain-containing protein.	0.590

page 1 of 2

Network Stats

number of nodes:

11

number of edges:

23

average node degree:

4.18

avg. local clustering coefficient:

0.854

expected number of edges:

11

PPI enrichment p-value:

0.000859

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:0060382

Regulation of DNA strand elongation

5 of 15

2.71

4.34

6.54e-09

GO:0006275

Regulation of DNA replication

5 of 98

1.9

2.28

1.20e-05

GO:0043967

Histone H4 acetylation

4 of 46

2.13

2.14

5.83e-05

GO:1904507

Positive regulation of telomere maintenance in response to DNA damage

3 of 10

2.67

2.13

0.00012

GO:0006325

Chromatin organization

7 of 430

1.4

1.68

1.16e-05

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0031011

Ino80 complex

5 of 13

2.77

5.18

1.69e-10

GO:0070603

SWI/SNF superfamily-type complex

7 of 79

2.14

4.68

3.26e-11

GO:0035267

NuA4 histone acetyltransferase complex

4 of 20

2.49

3.4

3.05e-07

GO:0045095

Keratin filament

4 of 52

2.07

2.55

5.79e-06

GO:0071339

MLL1 complex

3 of 26

2.25

2.17

6.53e-05

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:32306

Keratin, high sulfur B2 protein

4 of 5

3.09

4.02

4.46e-08

CL:6969

Ino80 complex

3 of 6

2.89

2.6

1.74e-05

CL:10875

R2TP complex

2 of 5

2.79

1.47

0.0021

CL:7099

SWI/SNF complex, and Mesenchyme migration

2 of 27

2.06

0.8

0.0318

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-5689603

UCH proteinases

4 of 95

1.81

1.55

0.00058

MAP-6805567

Keratinization

4 of 148

1.62

1.28

0.0016

MAP-5688426

Deubiquitination

4 of 304

1.31

0.76

0.0177

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0031011

Ino80 complex

7 of 32

2.53

6.64

3.63e-14

GOCC:0070603

SWI/SNF superfamily-type complex

9 of 102

2.13

6.1

1.48e-15

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0233

DNA recombination

4 of 19

2.51

3.4

3.28e-07

KW-0416

Keratin

4 of 34

2.26

2.96

1.36e-06

KW-0234

DNA repair

4 of 80

1.89

2.16

2.34e-05

KW-0805

Transcription regulation

4 of 437

1.15

0.76

0.0100

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF13885

Keratin, high sulfur B2 protein

4 of 18

2.54

3.09

1.44e-06

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00268

Actin

3 of 22

2.32

1.83

0.00035

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