Vbra_19460 protein (Vitrella brassicaformis)

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

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Coexpression

Experiments

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[Homology]

Score

Vbra_19460

Uncharacterized protein. (503 aa)

Predicted Functional Partners:

Vbra_19748

0.661

Vbra_22075

0.651

Vbra_10989

0.612

Vbra_1930

0.600

Vbra_20993

0.600

Vbra_1035

0.600

Vbra_9247

0.561

Vbra_8533

0.546

Vbra_21199

0.546

Vbra_21172

0.546

Your Current Organism:

Vitrella brassicaformis

NCBI taxonomy Id: 1169540
Other names: V. brassicaformis CCMP3155, Vitrella brassicaformis CCMP3155

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
Vbra_1035	Vbra_10989	A0A0G4GPR5	A0A0G4EAI0	Uncharacterized protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	DUF4206 domain-containing protein.	0.604
Vbra_1035	Vbra_19460	A0A0G4GPR5	A0A0G4H317	Uncharacterized protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Uncharacterized protein.	0.600
Vbra_1035	Vbra_22075	A0A0G4GPR5	A0A0G4G961	Uncharacterized protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	Uncharacterized protein; Belongs to the STXBP/unc-18/SEC1 family.	0.499
Vbra_10989	Vbra_1035	A0A0G4EAI0	A0A0G4GPR5	DUF4206 domain-containing protein.	Uncharacterized protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	0.604
Vbra_10989	Vbra_1930	A0A0G4EAI0	A0A0G4E9W7	DUF4206 domain-containing protein.	Uncharacterized protein.	0.604
Vbra_10989	Vbra_19460	A0A0G4EAI0	A0A0G4H317	DUF4206 domain-containing protein.	Uncharacterized protein.	0.612
Vbra_10989	Vbra_20993	A0A0G4EAI0	A0A0G4EXG3	DUF4206 domain-containing protein.	Uncharacterized protein.	0.604
Vbra_10989	Vbra_22075	A0A0G4EAI0	A0A0G4G961	DUF4206 domain-containing protein.	Uncharacterized protein; Belongs to the STXBP/unc-18/SEC1 family.	0.594
Vbra_10989	Vbra_9247	A0A0G4EAI0	A0A0G4FJS8	DUF4206 domain-containing protein.	PX domain-containing protein.	0.671
Vbra_1930	Vbra_10989	A0A0G4E9W7	A0A0G4EAI0	Uncharacterized protein.	DUF4206 domain-containing protein.	0.604
Vbra_1930	Vbra_19460	A0A0G4E9W7	A0A0G4H317	Uncharacterized protein.	Uncharacterized protein.	0.600
Vbra_1930	Vbra_22075	A0A0G4E9W7	A0A0G4G961	Uncharacterized protein.	Uncharacterized protein; Belongs to the STXBP/unc-18/SEC1 family.	0.499
Vbra_19460	Vbra_1035	A0A0G4H317	A0A0G4GPR5	Uncharacterized protein.	Uncharacterized protein; Belongs to the TRAFAC class dynamin-like GTPase superfamily. Dynamin/Fzo/YdjA family.	0.600
Vbra_19460	Vbra_10989	A0A0G4H317	A0A0G4EAI0	Uncharacterized protein.	DUF4206 domain-containing protein.	0.612
Vbra_19460	Vbra_1930	A0A0G4H317	A0A0G4E9W7	Uncharacterized protein.	Uncharacterized protein.	0.600
Vbra_19460	Vbra_19748	A0A0G4H317	A0A0G4H747	Uncharacterized protein.	6-phosphogluconate dehydrogenase, decarboxylating; Catalyzes the oxidative decarboxylation of 6-phosphogluconate to ribulose 5-phosphate and CO(2), with concomitant reduction of NADP to NADPH.	0.661
Vbra_19460	Vbra_20993	A0A0G4H317	A0A0G4EXG3	Uncharacterized protein.	Uncharacterized protein.	0.600
Vbra_19460	Vbra_21172	A0A0G4H317	A0A0G4F4F5	Uncharacterized protein.	Uncharacterized protein.	0.546
Vbra_19460	Vbra_21199	A0A0G4H317	A0A0G4F3F3	Uncharacterized protein.	WD_REPEATS_REGION domain-containing protein.	0.546
Vbra_19460	Vbra_22075	A0A0G4H317	A0A0G4G961	Uncharacterized protein.	Uncharacterized protein; Belongs to the STXBP/unc-18/SEC1 family.	0.651

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Network Stats

number of nodes:

11

number of edges:

22

average node degree:

4

avg. local clustering coefficient:

0.876

expected number of edges:

10

PPI enrichment p-value:

0.00102

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:0006284

Base-excision repair

7 of 20

2.44

5.78

1.47e-12

GO:0006285

Base-excision repair, AP site formation

5 of 8

2.69

4.53

2.62e-09

GO:0006281

DNA repair

8 of 234

1.43

2.13

6.25e-08

GO:0097510

Base-excision repair, AP site formation via deaminated base removal

2 of 2

2.89

1.41

0.0028

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0019104

DNA N-glycosylase activity

5 of 12

2.51

4.26

5.27e-09

GO:0003906

DNA-(apurinic or apyrimidinic site) endonuclease activity

4 of 5

2.79

3.91

5.28e-08

GO:0140097

Catalytic activity, acting on DNA

9 of 153

1.66

3.39

1.87e-11

GO:0000702

Oxidized base lesion DNA N-glycosylase activity

3 of 8

2.47

2.28

5.29e-05

GO:0140078

Class I DNA-(apurinic or apyrimidinic site) endonuclease activity

2 of 3

2.72

1.47

0.0021

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:7191

Base-excision repair

5 of 10

2.59

4.32

5.37e-09

CL:7196

DNA-(apurinic or apyrimidinic site) endonuclease activity, and DNA dealkylation

4 of 5

2.79

3.7

1.38e-07

CL:6867

DNA metabolic process

7 of 175

1.49

2.17

2.66e-07

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03410

Base excision repair

7 of 40

2.13

4.97

4.54e-12

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-73929

Base-Excision Repair, AP Site Formation

4 of 14

2.35

2.89

2.47e-06

MAP-73884

Base Excision Repair

5 of 46

1.93

2.57

2.47e-06

MAP-73928

Depyrimidination

3 of 7

2.52

2.34

4.24e-05

MAP-110329

Cleavage of the damaged pyrimidine

3 of 7

2.52

2.34

4.24e-05

MAP-73894

DNA Repair

6 of 223

1.32

1.45

4.22e-05

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0227

DNA damage

3 of 27

1.94

1.44

0.0014

KW-0234

DNA repair

2 of 21

1.87

0.78

0.0330

KW-0378

Hydrolase

4 of 271

1.06

0.58

0.0330

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR000445

Helix-hairpin-helix motif

2 of 2

2.89

0.91

0.0224

IPR023170

Helix-hairpin-helix, base-excision DNA repair, C-terminal

2 of 4

2.59

0.86

0.0280

IPR003265

HhH-GPD domain

2 of 4

2.59

0.86

0.0280

IPR011257

DNA glycosylase

2 of 7

2.35

0.81

0.0335

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00478

Endonuclease III

2 of 3

2.72

1.29

0.0045

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