dppE protein (Paenibacillus polymyxa) - 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

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second shell of interactors

Node Content

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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

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Experiments

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[Homology]

Score

dppE

Peptide-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (566 aa)

Predicted Functional Partners:

oppB7

0.992

oppC7

0.989

oppF5

0.986

oppD5

0.979

oppA3

0.909

oppB3

0.881

dppC1

0.832

AIY09678.1

0.766

AIY09679.1

0.733

oppF3

0.665

Your Current Organism:

Paenibacillus polymyxa

NCBI taxonomy Id: 1406
Other names: ATCC 842, Aerobacillus polymyxa, Bacillus polymyxa, Bacillus sp. NCIM 2538, Bacillus sp. NCIM 2540, Bacillus sp. NCIM 2726, Bacillus sp. RP 2.2, CCUG 7426, CFBP 4258, CIP 66.22, Clostridium polymyxa, DSM 36, Granulobacter polymyxa, HAMBI 635, IAM 13419, IFO 15309, JCM 2507, LMG 13294, LMG:13294, NBRC 15309, NCCB 24016, NCIB 8158, NCIB:8158, NCTC 10343, NRRL B-4317, P. polymyxa, Paenibacillus sp. JCM 8035, Paenibacillus sp. JCM 8036, Paenibacillus sp. JCM 8037, Paenibacillus sp. JCM 8038, Paenibacillus sp. JCM 8039, Paenibacillus sp. WLY78, VKM B-514

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
AIY09678.1	AIY09679.1	LK13_14295	LK13_14300	Peptide ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.983
AIY09678.1	dppC1	LK13_14295	LK13_17875	Peptide ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Diguanylate cyclase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.983
AIY09678.1	dppE	LK13_14295	LK13_04020	Peptide ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.766
AIY09678.1	oppA3	LK13_14295	LK13_17870	Peptide ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.768
AIY09678.1	oppB3	LK13_14295	LK13_17880	Peptide ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.842
AIY09678.1	oppB7	LK13_14295	LK13_04015	Peptide ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.844
AIY09678.1	oppC7	LK13_14295	LK13_04010	Peptide ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Diguanylate cyclase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.982
AIY09678.1	oppF5	LK13_14295	LK13_04005	Peptide ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide ABC transporter ATP-binding protein; With OppABCD is involved in the transport of oligopeptides; OppF and OppD are ATP-binding proteins; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.550
AIY09679.1	AIY09678.1	LK13_14300	LK13_14295	Peptide ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.983
AIY09679.1	dppC1	LK13_14300	LK13_17875	Peptide ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Diguanylate cyclase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.982
AIY09679.1	dppE	LK13_14300	LK13_04020	Peptide ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.733
AIY09679.1	oppA3	LK13_14300	LK13_17870	Peptide ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.736
AIY09679.1	oppB3	LK13_14300	LK13_17880	Peptide ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.848
AIY09679.1	oppB7	LK13_14300	LK13_04015	Peptide ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.852
AIY09679.1	oppC7	LK13_14300	LK13_04010	Peptide ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Diguanylate cyclase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.970
AIY09679.1	oppF5	LK13_14300	LK13_04005	Peptide ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide ABC transporter ATP-binding protein; With OppABCD is involved in the transport of oligopeptides; OppF and OppD are ATP-binding proteins; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.459
dppC1	AIY09678.1	LK13_17875	LK13_14295	Diguanylate cyclase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide ABC transporter ATP-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.983
dppC1	AIY09679.1	LK13_17875	LK13_14300	Diguanylate cyclase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.982
dppC1	dppE	LK13_17875	LK13_04020	Diguanylate cyclase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Peptide-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.832
dppC1	oppA3	LK13_17875	LK13_17870	Diguanylate cyclase; Derived by automated computational analysis using gene prediction method: Protein Homology.	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.910

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Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

37

PPI enrichment p-value:

0.00116

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:0018106

Peptidyl-histidine phosphorylation

5 of 50

1.65

2.1

6.14e-06

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0000155

Phosphorelay sensor kinase activity

11 of 77

1.8

5.0

2.47e-17

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016021

Integral component of membrane

11 of 1042

0.67

0.63

5.62e-06

GO:0005886

Plasma membrane

8 of 722

0.69

0.56

0.00084

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:4081

Mixed, incl. HPT domain superfamily, and SinI-like, DNA-binding domain

7 of 12

2.42

5.98

4.21e-13

CL:4085

HPT domain superfamily, and Sodium/solute symporter

4 of 5

2.55

3.59

1.49e-07

CL:4062

cheY-homologous receiver domain, and Histidine kinase domain

8 of 75

1.68

3.3

1.11e-10

CL:4058

Phosphorelay signal transduction system, and Nucleotide cyclase

11 of 144

1.53

3.29

2.25e-14

CL:4247

PAC motif

3 of 6

2.35

2.23

5.64e-05

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0016020

Membrane

10 of 933

0.68

0.59

0.00018

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0597

Phosphoprotein

8 of 94

1.58

2.83

9.40e-10

KW-0418

Kinase

8 of 116

1.49

2.51

2.33e-09

KW-0175

Coiled coil

7 of 374

0.92

0.84

0.00023

KW-0067

ATP-binding

5 of 317

0.85

0.56

0.0138

KW-1133

Transmembrane helix

8 of 1002

0.55

0.38

0.0130

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR003661

Signal transduction histidine kinase, dimerisation/phosphoacceptor domain

8 of 41

1.94

4.29

1.57e-11

IPR035965

PAS domain superfamily

8 of 43

1.92

4.23

1.57e-11

IPR036097

Signal transduction histidine kinase, dimerisation/phosphoacceptor domain superfamily

8 of 44

1.91

4.2

1.57e-11

IPR004358

Signal transduction histidine kinase-related protein, C-terminal

8 of 44

1.91

4.2

1.57e-11

IPR000014

PAS domain

7 of 36

1.94

3.98

1.71e-10

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00091

PAS domain

8 of 42

1.93

4.54

1.43e-12

SM00388

His Kinase A (phosphoacceptor) domain

8 of 49

1.86

4.27

2.19e-12

SM00086

Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain)

6 of 24

2.05

4.12

3.83e-10

SM00387

Histidine kinase-like ATPases

8 of 58

1.79

3.94

5.05e-12

SM00073

Histidine Phosphotransfer domain

4 of 7

2.41

3.58

1.03e-07

(more ...)

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