dctP_4 protein (Labrenzia aggregata) - STRING interaction network

Nodes:

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query proteins and first shell of interactors

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second shell of interactors

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proteins of unknown 3D structure

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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

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[Homology]

Score

dctP_4

C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (330 aa)

Predicted Functional Partners:

siaT_26

0.988

siaT_25

0.987

dctP_6

0.916

AQQ03843.1

0.903

B0E33_09775

0.785

AQQ03842.1

0.785

Dml_1

0.733

siaT_14

0.626

siaT_3

0.589

siaT_18

0.559

Your Current Organism:

Labrenzia aggregata

NCBI taxonomy Id: 187304
Other names: ATCC 25650, Agrobacterium aggregatum, DSM 13394, IAM 12614, JCM 20685, L. aggregata, LMG 122, LMG:122, NBRC 16684, NCIMB 2208, Stappia aggregata, strain B1

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
AQQ03842.1	AQQ03843.1	B0E33_09780	B0E33_09785	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.912
AQQ03842.1	B0E33_09775	B0E33_09780	B0E33_09775	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.925
AQQ03842.1	dctP_4	B0E33_09780	B0E33_12405	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.785
AQQ03842.1	siaT_14	B0E33_09780	B0E33_08810	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.519
AQQ03842.1	siaT_25	B0E33_09780	B0E33_12415	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.713
AQQ03842.1	siaT_3	B0E33_09780	B0E33_22950	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.509
AQQ03843.1	AQQ03842.1	B0E33_09785	B0E33_09780	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.912
AQQ03843.1	B0E33_09775	B0E33_09785	B0E33_09775	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.907
AQQ03843.1	Dml_1	B0E33_09785	B0E33_12420	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Carboxyvinyl-carboxyphosphonate phosphorylmutase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.435
AQQ03843.1	dctP_4	B0E33_09785	B0E33_12405	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.903
AQQ03843.1	dctP_6	B0E33_09785	B0E33_11655	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.923
AQQ03843.1	siaT_14	B0E33_09785	B0E33_08810	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.664
AQQ03843.1	siaT_18	B0E33_09785	B0E33_05945	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.494
AQQ03843.1	siaT_25	B0E33_09785	B0E33_12415	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.787
AQQ03843.1	siaT_26	B0E33_09785	B0E33_12410	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.797
AQQ03843.1	siaT_3	B0E33_09785	B0E33_22950	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.681
B0E33_09775	AQQ03842.1	B0E33_09775	B0E33_09780	Hypothetical protein; Frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.925
B0E33_09775	AQQ03843.1	B0E33_09775	B0E33_09785	Hypothetical protein; Frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.907
B0E33_09775	dctP_4	B0E33_09775	B0E33_12405	Hypothetical protein; Frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.785
B0E33_09775	siaT_26	B0E33_09775	B0E33_12410	Hypothetical protein; Frameshifted; internal stop; Derived by automated computational analysis using gene prediction method: Protein Homology.	C4-dicarboxylate ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.624

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Network Stats

number of nodes:

11

number of edges:

20

average node degree:

3.64

avg. local clustering coefficient:

0.832

expected number of edges:

24

PPI enrichment p-value:

0.814

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?)
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Biological Process (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0009847

Spore germination

9 of 60

1.89

4.57

2.71e-13

GO:0030154

Cell differentiation

11 of 230

1.39

2.6

4.84e-13

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005886

Plasma membrane

10 of 1434

0.55

0.44

0.0013

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:6158

Mixed, incl. Spore germination GerAB, and Spore germination GerAC-like

6 of 10

2.49

5.36

2.04e-11

CL:5985

Spore germination, and Sporulation

11 of 102

1.74

4.55

1.56e-16

CL:6160

Spore germination GerAB, and Spore germination GerAC-like

4 of 5

2.61

3.58

1.75e-07

CL:5988

Spore germination, and Sporulation

5 of 77

1.52

1.72

3.85e-05

CL:6051

SpoVA, and Spore wall

2 of 5

2.31

1.13

0.0082

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF05504

Spore germination B3/ GerAC like, C-terminal

4 of 16

2.11

2.27

2.95e-05

PF03845

Spore germination protein

3 of 19

1.91

1.26

0.0033

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR046953

Spore germination GerAC-like, C-terminal

4 of 16

2.11

2.08

7.51e-05

IPR038501

Spore germination GerAC, C-terminal domain superfamily

4 of 16

2.11

2.08

7.51e-05

IPR008844

Spore germination GerAC-like

4 of 16

2.11

2.08

7.51e-05

IPR004761

Spore germination GerAB

3 of 18

1.93

1.25

0.0036

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