Pnap_3237 protein (Polaromonas naphthalenivorans)

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second shell of interactors

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Predicted Interactions

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Score

Pnap_3237

PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_3880 protein of unknown function DUF112, transmembrane. (503 aa)

Predicted Functional Partners:

Pnap_1236

0.907

Pnap_3238

0.905

Pnap_0136

0.838

Pnap_0265

0.838

Pnap_0599

0.838

Pnap_0604

0.838

Pnap_0617

0.838

Pnap_0720

0.838

Pnap_0805

0.838

Pnap_0843

0.838

Your Current Organism:

Polaromonas naphthalenivorans

NCBI taxonomy Id: 365044
Other names: P. naphthalenivorans CJ2, Polaromonas naphthalenivorans CJ2, Polaromonas naphthalenivorans str. CJ2, Polaromonas naphthalenivorans strain CJ2

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Browse interactions in tabular form:

node1	node2	node1 annotation	node2 annotation	score
Pnap_0136	Pnap_1236	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_0198 twin-arginine translocation pathway signal.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_2011 protein of unknown function DUF112, transmembrane.	0.835
Pnap_0136	Pnap_3237	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_0198 twin-arginine translocation pathway signal.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_3880 protein of unknown function DUF112, transmembrane.	0.838
Pnap_0136	Pnap_3238	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_0198 twin-arginine translocation pathway signal.	PFAM: protein of unknown function DUF1468; KEGG: pol:Bpro_3881 protein of unknown function DUF1468.	0.650
Pnap_0265	Pnap_1236	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_0596 uncharacterized protein UPF0065.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_2011 protein of unknown function DUF112, transmembrane.	0.836
Pnap_0265	Pnap_3237	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_0596 uncharacterized protein UPF0065.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_3880 protein of unknown function DUF112, transmembrane.	0.838
Pnap_0265	Pnap_3238	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_0596 uncharacterized protein UPF0065.	PFAM: protein of unknown function DUF1468; KEGG: pol:Bpro_3881 protein of unknown function DUF1468.	0.606
Pnap_0599	Pnap_1236	PFAM: Uncharacterized protein UPF0065; KEGG: bbr:BB0660 hypothetical protein.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_2011 protein of unknown function DUF112, transmembrane.	0.833
Pnap_0599	Pnap_3237	PFAM: Uncharacterized protein UPF0065; KEGG: bbr:BB0660 hypothetical protein.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_3880 protein of unknown function DUF112, transmembrane.	0.838
Pnap_0599	Pnap_3238	PFAM: Uncharacterized protein UPF0065; KEGG: bbr:BB0660 hypothetical protein.	PFAM: protein of unknown function DUF1468; KEGG: pol:Bpro_3881 protein of unknown function DUF1468.	0.591
Pnap_0604	Pnap_1236	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_3116 twin-arginine translocation pathway signal.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_2011 protein of unknown function DUF112, transmembrane.	0.834
Pnap_0604	Pnap_3237	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_3116 twin-arginine translocation pathway signal.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_3880 protein of unknown function DUF112, transmembrane.	0.838
Pnap_0604	Pnap_3238	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_3116 twin-arginine translocation pathway signal.	PFAM: protein of unknown function DUF1468; KEGG: pol:Bpro_3881 protein of unknown function DUF1468.	0.687
Pnap_0617	Pnap_1236	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_1232 uncharacterized protein UPF0065.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_2011 protein of unknown function DUF112, transmembrane.	0.835
Pnap_0617	Pnap_3237	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_1232 uncharacterized protein UPF0065.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_3880 protein of unknown function DUF112, transmembrane.	0.838
Pnap_0617	Pnap_3238	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_1232 uncharacterized protein UPF0065.	PFAM: protein of unknown function DUF1468; KEGG: pol:Bpro_3881 protein of unknown function DUF1468.	0.591
Pnap_0720	Pnap_1236	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_4137 uncharacterized protein UPF0065.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_2011 protein of unknown function DUF112, transmembrane.	0.832
Pnap_0720	Pnap_3237	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_4137 uncharacterized protein UPF0065.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_3880 protein of unknown function DUF112, transmembrane.	0.838
Pnap_0720	Pnap_3238	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_4137 uncharacterized protein UPF0065.	PFAM: protein of unknown function DUF1468; KEGG: pol:Bpro_3881 protein of unknown function DUF1468.	0.403
Pnap_0805	Pnap_1236	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_0198 twin-arginine translocation pathway signal.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_2011 protein of unknown function DUF112, transmembrane.	0.838
Pnap_0805	Pnap_3237	PFAM: Uncharacterized protein UPF0065; KEGG: pol:Bpro_0198 twin-arginine translocation pathway signal.	PFAM: protein of unknown function DUF112, transmembrane; KEGG: pol:Bpro_3880 protein of unknown function DUF112, transmembrane.	0.838

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

44

average node degree:

8

avg. local clustering coefficient:

0.925

expected number of edges:

11

PPI enrichment p-value:

1.31e-13

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:0006312

Mitotic recombination

6 of 20

2.79

6.33

8.67e-13

GO:0006310

DNA recombination

10 of 176

2.07

6.2

8.80e-17

GO:0000724

Double-strand break repair via homologous recombination

8 of 89

2.27

6.08

3.45e-14

GO:0045003

Double-strand break repair via synthesis-dependent strand annealing

5 of 7

3.17

6.04

8.13e-12

GO:0006302

Double-strand break repair

9 of 173

2.03

5.38

2.31e-14

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0140664

ATP-dependent DNA damage sensor activity

5 of 18

2.76

4.83

7.97e-10

GO:0008094

ATP-dependent activity, acting on DNA

6 of 107

2.07

3.8

3.86e-09

GO:0003697

Single-stranded DNA binding

4 of 87

1.98

2.16

3.39e-05

GO:0000150

DNA strand exchange activity

2 of 2

3.32

1.9

0.00038

GO:0003677

DNA binding

8 of 2428

0.84

0.71

0.00054

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0033061

DNA recombinase mediator complex

5 of 6

3.24

6.17

5.15e-12

GO:0000781

Chromosome, telomeric region

4 of 56

2.17

2.67

4.39e-06

GO:0000228

Nuclear chromosome

5 of 149

1.84

2.48

2.44e-06

GO:0033065

Rad51C-XRCC3 complex

2 of 2

3.32

1.94

0.00032

GO:0032798

Swi5-Sfr1 complex

2 of 2

3.32

1.94

0.00032

(more ...)

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:35713948

(2022) Obligate sexual reproduction of a homothallic fungus closely related to the Cryptococcus pathogenic species complex.

3 of 30

2.32

1.82

0.00037

PMID:24742317

(2014) Comparative analysis of the gonadal transcriptomes of the all-female species Poecilia formosa and its maternal ancestor Poecilia mexicana.

2 of 10

2.62

1.23

0.0057

PMID:36459298

(2022) Achiasmatic meiosis in the unisexual Amazon molly, Poecilia formosa.

2 of 20

2.32

1.02

0.0132

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:7057

Homologous DNA Pairing and Strand Exchange, and DNA replication factor A complex

6 of 22

2.75

5.95

4.36e-12

CL:7085

DNA recombination and repair protein Rad51-like, C-terminal

4 of 6

3.14

4.5

6.07e-09

CL:35651

Mixed, incl. Swi5-Sfr1 complex, and TRAM1-like protein

3 of 7

2.95

2.88

5.51e-06

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

pret03440

Homologous recombination

2 of 27

2.19

0.99

0.0141

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-5693579

Homologous DNA Pairing and Strand Exchange

4 of 26

2.5

3.1

1.31e-06

MAP-5693568

Resolution of D-loop Structures through Holliday Junction Intermediates

4 of 30

2.44

3.07

1.31e-06

MAP-5693537

Resolution of D-Loop Structures

4 of 30

2.44

3.07

1.31e-06

MAP-5685942

HDR through Homologous Recombination (HRR)

4 of 64

2.11

2.59

5.52e-06

MAP-5693567

HDR through Homologous Recombination (HRR) or Single Strand Annealing (SSA)

5 of 140

1.87

2.56

1.78e-06

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0033061

DNA recombinase mediator complex

6 of 7

3.25

7.73

6.11e-15

GOCC:0000228

Nuclear chromosome

5 of 207

1.7

1.99

2.21e-05

GOCC:0033065

Rad51C-XRCC3 complex

2 of 2

3.32

1.89

0.00039

GOCC:0032798

Swi5-Sfr1 complex

2 of 2

3.32

1.89

0.00039

GOCC:0033063

Rad51B-Rad51C-Rad51D-XRCC2 complex

2 of 3

3.14

1.86

0.00044

(more ...)

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR020588

DNA recombination and repair protein RecA-like, ATP-binding domain

5 of 6

3.24

5.77

2.90e-11

IPR013632

DNA recombination and repair protein Rad51-like, C-terminal

5 of 6

3.24

5.77

2.90e-11

IPR016467

DNA recombination and repair protein, RecA-like

2 of 2

3.32

1.4

0.0030

IPR010995

DNA repair Rad51/transcription factor NusA, alpha-helical

2 of 2

3.32

1.4

0.0030

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00382

ATPases associated with a variety of cellular activities

4 of 151

1.74

1.54

0.00050

SM00278

Helix-hairpin-helix DNA-binding motif class 1

2 of 7

2.77

1.4

0.0029

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