LXN protein (Anas platyrhynchos) - 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:

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Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

LXN

Latexin. (273 aa)

Predicted Functional Partners:

NPEPL1

0.586

ENSAPLP00000025115

0.477

U3I8E8_ANAPP

0.473

TCIM

0.471

PARD3B

0.471

U3IAQ2_ANAPP

0.449

OMA1

0.426

Your Current Organism:

Anas platyrhynchos

NCBI taxonomy Id: 8840
Other names: A. platyrhynchos platyrhynchos, Anas platyrhynchos platyrhynchos, common mallard, northern mallard

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
ENSAPLP00000025115	LXN	ENSAPLP00000025115	ENSAPLP00000004892	BPI2 domain-containing protein.	Latexin.	0.477
LXN	ENSAPLP00000025115	ENSAPLP00000004892	ENSAPLP00000025115	Latexin.	BPI2 domain-containing protein.	0.477
LXN	NPEPL1	ENSAPLP00000004892	ENSAPLP00000001222	Latexin.	Aminopeptidase like 1.	0.586
LXN	OMA1	ENSAPLP00000004892	ENSAPLP00000006012	Latexin.	OMA1 zinc metallopeptidase.	0.426
LXN	PARD3B	ENSAPLP00000004892	ENSAPLP00000029745	Latexin.	Par-3 family cell polarity regulator beta.	0.471
LXN	TCIM	ENSAPLP00000004892	ENSAPLP00000000680	Latexin.	Transcriptional and immune response regulator.	0.471
LXN	U3I8E8_ANAPP	ENSAPLP00000004892	ENSAPLP00000003519	Latexin.	Gla domain-containing protein.	0.473
LXN	U3IAQ2_ANAPP	ENSAPLP00000004892	ENSAPLP00000004324	Latexin.	Meprin A subunit.	0.449
NPEPL1	LXN	ENSAPLP00000001222	ENSAPLP00000004892	Aminopeptidase like 1.	Latexin.	0.586
NPEPL1	U3IAQ2_ANAPP	ENSAPLP00000001222	ENSAPLP00000004324	Aminopeptidase like 1.	Meprin A subunit.	0.636
OMA1	LXN	ENSAPLP00000006012	ENSAPLP00000004892	OMA1 zinc metallopeptidase.	Latexin.	0.426
PARD3B	LXN	ENSAPLP00000029745	ENSAPLP00000004892	Par-3 family cell polarity regulator beta.	Latexin.	0.471
TCIM	LXN	ENSAPLP00000000680	ENSAPLP00000004892	Transcriptional and immune response regulator.	Latexin.	0.471
U3I8E8_ANAPP	LXN	ENSAPLP00000003519	ENSAPLP00000004892	Gla domain-containing protein.	Latexin.	0.473
U3IAQ2_ANAPP	LXN	ENSAPLP00000004324	ENSAPLP00000004892	Meprin A subunit.	Latexin.	0.449
U3IAQ2_ANAPP	NPEPL1	ENSAPLP00000004324	ENSAPLP00000001222	Meprin A subunit.	Aminopeptidase like 1.	0.636

Network Stats

number of nodes:

7

number of edges:

9

average node degree:

2.57

avg. local clustering coefficient:

0.814

expected number of edges:

7

PPI enrichment p-value:

0.228

your network does not have 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:0071103

DNA conformation change

6 of 97

2.07

3.53

2.04e-08

GO:0006260

DNA replication

7 of 161

1.92

3.51

4.10e-09

GO:0006265

DNA topological change

3 of 8

2.85

2.59

1.78e-05

GO:0006261

DNA-templated DNA replication

5 of 113

1.92

2.45

5.20e-06

GO:0006268

DNA unwinding involved in DNA replication

3 of 21

2.43

2.03

0.00016

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0140097

Catalytic activity, acting on DNA

8 of 218

1.84

3.82

7.89e-11

GO:0003916

DNA topoisomerase activity

3 of 7

2.91

2.79

7.78e-06

GO:0140640

Catalytic activity, acting on a nucleic acid

9 of 551

1.49

2.62

5.21e-10

GO:0008094

ATP-dependent activity, acting on DNA

5 of 118

1.91

2.52

2.91e-06

GO:0061749

Forked DNA-dependent helicase activity

2 of 2

3.28

1.86

0.00045

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005694

Chromosome

7 of 1032

1.11

1.03

0.00031

GO:0042645

Mitochondrial nucleoid

2 of 39

1.99

0.8

0.0311

GO:0000228

Nuclear chromosome

3 of 182

1.5

0.78

0.0235

GO:0098687

Chromosomal region

3 of 259

1.34

0.67

0.0353

GO:0005654

Nucleoplasm

9 of 2977

0.76

0.65

0.00031

(more ...)

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:37488659

(2023) Human adaptation and diversification in the Microsporum canis complex.

3 of 9

2.8

1.54

0.0016

PMID:9786955

(1998) Cyclin-dependent kinases participate in death of neurons evoked by DNA-damaging agents.

3 of 13

2.64

1.53

0.0016

PMID:37944988

(2023) The proofreading exonuclease of leading-strand DNA polymerase epsilon prevents replication fork collapse at broken template strands.

3 of 12

2.68

1.53

0.0016

PMID:31733064

(2020) pathDIP 4: an extended pathway annotations and enrichment analysis resource for human, model organisms and domesticated species.

3 of 13

2.64

1.53

0.0016

PMID:25780573

(2013) Breaking news from spermatids.

3 of 12

2.68

1.53

0.0016

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:784

Mixed, incl. DNA replication, and Fanconi anemia pathway

7 of 197

1.83

3.2

1.12e-08

CL:786

Catalytic activity, acting on DNA, and Fanconi anemia pathway

6 of 183

1.79

2.64

5.16e-07

CL:788

DNA-templated DNA replication, and HDR through Single Strand Annealing (SSA)

4 of 134

1.75

1.5

0.00067

CL:1140

SprT-like, and tyrosyl-DNA phosphodiesterase activity

2 of 6

2.8

1.25

0.0054

CL:797

RecQ family helicase-topoisomerase III complex, and Removal of the Flap Intermediate from the C-strand

2 of 13

2.47

0.96

0.0174

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

ecb03030

DNA replication

3 of 32

2.25

1.9

0.00023

ecb03420

Nucleotide excision repair

2 of 43

1.95

0.74

0.0408

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-5685942

HDR through Homologous Recombination (HRR)

4 of 60

2.1

2.19

4.38e-05

MAP-4615885

SUMOylation of DNA replication proteins

3 of 24

2.38

1.9

0.00027

MAP-174417

Telomere C-strand (Lagging Strand) Synthesis

3 of 33

2.24

1.77

0.00043

MAP-5685938

HDR through Single Strand Annealing (SSA)

3 of 40

2.15

1.69

0.00056

MAP-180786

Extension of Telomeres

3 of 55

2.02

1.54

0.00093

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0009330

DNA topoisomerase type II (double strand cut, ATP-hydrolyzing) complex

2 of 2

3.28

1.48

0.0022

GOCC:0005657

Replication fork

3 of 39

2.17

1.4

0.0022

GOCC:0042645

Mitochondrial nucleoid

2 of 26

2.17

0.9

0.0214

GOCC:0070013

Intracellular organelle lumen

6 of 1406

0.91

0.56

0.0194

GOCC:0005694

Chromosome

4 of 629

1.08

0.56

0.0419

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0799

Topoisomerase

3 of 6

2.98

2.99

3.54e-06

KW-0238

DNA-binding

4 of 660

1.06

0.57

0.0362

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF08070

DTHCT (NUC029) region

2 of 2

3.28

1.37

0.0034

PF16124

RecQ zinc-binding

2 of 4

2.98

1.31

0.0043

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR044876

HRDC domain superfamily

2 of 3

3.1

1.1

0.0106

IPR034157

DNA topoisomerase 2, TOPRIM domain

2 of 2

3.28

1.1

0.0106

IPR031660

C-terminal associated domain of TOPRIM

2 of 2

3.28

1.1

0.0106

IPR018982

RQC domain

2 of 2

3.28

1.1

0.0106

IPR018522

DNA topoisomerase, type IIA, conserved site

2 of 2

3.28

1.1

0.0106

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00956

This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure. The RQC domain, found only in RecQ family enzymes, is a high affinity G4 DNA binding domain PUBMED:16530788.

2 of 2

3.28

1.62

0.0012

SM00434

DNA Topoisomerase IV

2 of 2

3.28

1.62

0.0012

SM00433

TopoisomeraseII

2 of 2

3.28

1.62

0.0012

SM00341

Helicase and RNase D C-terminal

2 of 3

3.1

1.62

0.0012

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