SDK78678.1 protein (Glycomyces sambucus) - STRING interaction network

Nodes:

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second shell of interactors

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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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Score

SDK78678.1

Two-component system, NarL family, sensor histidine kinase DesK. (408 aa)

Predicted Functional Partners:

SDK81122.1

0.935

SDL09110.1

0.814

SDL07127.1

0.719

SDL03459.1

0.701

SDL17260.1

0.693

SDK90010.1

0.640

SDK61469.1

0.576

SDK63410.1

0.532

SDK89527.1

0.522

SDL46321.1

0.515

Your Current Organism:

Glycomyces sambucus

NCBI taxonomy Id: 380244
Other names: CGMCC 4.3147, DSM 45047, G. sambucus, Glycomyces sambucus Gu et al. 2007, Glycomyces sp. E71, JCM 15472, strain E71

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SDK61469.1	SDK78678.1	SAMN05216298_0803	SAMN05216298_1354	Two component transcriptional regulator, LuxR family.	Two-component system, NarL family, sensor histidine kinase DesK.	0.576
SDK61469.1	SDL03459.1	SAMN05216298_0803	SAMN05216298_2388	Two component transcriptional regulator, LuxR family.	Signal transduction histidine kinase.	0.414
SDK61469.1	SDL07127.1	SAMN05216298_0803	SAMN05216298_2576	Two component transcriptional regulator, LuxR family.	Signal transduction histidine kinase.	0.523
SDK61469.1	SDL09110.1	SAMN05216298_0803	SAMN05216298_2682	Two component transcriptional regulator, LuxR family.	Signal transduction histidine kinase.	0.905
SDK61469.1	SDL17260.1	SAMN05216298_0803	SAMN05216298_2877	Two component transcriptional regulator, LuxR family.	Signal transduction histidine kinase.	0.604
SDK63410.1	SDK78678.1	SAMN05216298_0904	SAMN05216298_1354	Two component transcriptional regulator, LuxR family.	Two-component system, NarL family, sensor histidine kinase DesK.	0.532
SDK63410.1	SDK81122.1	SAMN05216298_0904	SAMN05216298_1467	Two component transcriptional regulator, LuxR family.	Two component transcriptional regulator, LuxR family.	0.536
SDK63410.1	SDL03459.1	SAMN05216298_0904	SAMN05216298_2388	Two component transcriptional regulator, LuxR family.	Signal transduction histidine kinase.	0.414
SDK63410.1	SDL07127.1	SAMN05216298_0904	SAMN05216298_2576	Two component transcriptional regulator, LuxR family.	Signal transduction histidine kinase.	0.538
SDK63410.1	SDL09110.1	SAMN05216298_0904	SAMN05216298_2682	Two component transcriptional regulator, LuxR family.	Signal transduction histidine kinase.	0.905
SDK63410.1	SDL17260.1	SAMN05216298_0904	SAMN05216298_2877	Two component transcriptional regulator, LuxR family.	Signal transduction histidine kinase.	0.645
SDK78678.1	SDK61469.1	SAMN05216298_1354	SAMN05216298_0803	Two-component system, NarL family, sensor histidine kinase DesK.	Two component transcriptional regulator, LuxR family.	0.576
SDK78678.1	SDK63410.1	SAMN05216298_1354	SAMN05216298_0904	Two-component system, NarL family, sensor histidine kinase DesK.	Two component transcriptional regulator, LuxR family.	0.532
SDK78678.1	SDK81122.1	SAMN05216298_1354	SAMN05216298_1467	Two-component system, NarL family, sensor histidine kinase DesK.	Two component transcriptional regulator, LuxR family.	0.935
SDK78678.1	SDK89527.1	SAMN05216298_1354	SAMN05216298_1899	Two-component system, NarL family, sensor histidine kinase DesK.	Two component transcriptional regulator, LuxR family.	0.522
SDK78678.1	SDK90010.1	SAMN05216298_1354	SAMN05216298_1927	Two-component system, NarL family, sensor histidine kinase DesK.	Signal transduction histidine kinase.	0.640
SDK78678.1	SDL03459.1	SAMN05216298_1354	SAMN05216298_2388	Two-component system, NarL family, sensor histidine kinase DesK.	Signal transduction histidine kinase.	0.701
SDK78678.1	SDL07127.1	SAMN05216298_1354	SAMN05216298_2576	Two-component system, NarL family, sensor histidine kinase DesK.	Signal transduction histidine kinase.	0.719
SDK78678.1	SDL09110.1	SAMN05216298_1354	SAMN05216298_2682	Two-component system, NarL family, sensor histidine kinase DesK.	Signal transduction histidine kinase.	0.814
SDK78678.1	SDL17260.1	SAMN05216298_1354	SAMN05216298_2877	Two-component system, NarL family, sensor histidine kinase DesK.	Signal transduction histidine kinase.	0.693

page 1 of 4

Network Stats

number of nodes:

11

number of edges:

51

average node degree:

9.27

avg. local clustering coefficient:

0.941

expected number of edges:

20

PPI enrichment p-value:

5.21e-09

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:0044271

Cellular nitrogen compound biosynthetic process

9 of 328

0.9

0.95

1.91e-06

GO:1901566

Organonitrogen compound biosynthetic process

9 of 381

0.83

6.22e-06

GO:0044237

Cellular metabolic process

11 of 1221

0.42

0.36

0.00057

GO:0044238

Primary metabolic process

9 of 1084

0.38

0.28

0.0304

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0046933

Proton-transporting ATP synthase activity, rotational mechanism

8 of 9

2.41

6.64

9.66e-15

GO:0046961

Proton-transporting ATPase activity, rotational mechanism

2 of 3

2.28

1.25

0.0046

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0045259

Proton-transporting ATP synthase complex

8 of 8

2.46

7.14

1.07e-15

GO:0045261

Proton-transporting ATP synthase complex, catalytic core F(1)

5 of 5

2.46

4.49

1.41e-09

GO:0045263

Proton-transporting ATP synthase complex, coupling factor F(o)

3 of 3

2.46

2.61

1.16e-05

GO:0005886

Plasma membrane

9 of 467

0.75

0.7

2.11e-05

GO:0005622

Intracellular anatomical structure

11 of 1084

0.47

0.41

9.16e-05

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:32115437

(2020) Transcriptome Analysis of the Ammonia-Oxidizing Bacterium Nitrosomonas mobilis Ms1 Reveals Division of Labor between Aggregates and Free-living Cells.

4 of 11

2.02

2.39

1.14e-05

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:283

ATP synthesis

8 of 8

2.46

6.85

5.66e-15

CL:119

Ribosome, and ATP synthesis

9 of 91

1.46

2.53

3.77e-10

CL:847

Ubiquinol-cytochrome-c reductase activity, and Peptidase M16, C-terminal

2 of 5

2.06

0.98

0.0145

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00190

Oxidative phosphorylation

9 of 68

1.58

3.15

1.10e-11

map01100

Metabolic pathways

10 of 975

0.47

0.37

0.0036

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0045259

Proton-transporting ATP synthase complex

8 of 13

2.25

6.03

3.29e-14

GOCC:0045261

Proton-transporting ATP synthase complex, catalytic core F(1)

5 of 9

2.21

3.7

2.17e-08

GOCC:0045263

Proton-transporting ATP synthase complex, coupling factor F(o)

3 of 4

2.34

2.27

4.63e-05

GOCC:0016020

Membrane

9 of 549

0.68

0.58

0.00019

GOCC:0005622

Intracellular

9 of 1091

0.38

0.26

0.0464

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0066

ATP synthesis

8 of 8

2.46

7.05

1.80e-15

KW-0375

Hydrogen ion transport

8 of 9

2.41

6.93

1.80e-15

KW-0139

CF(1)

5 of 5

2.46

4.39

2.36e-09

KW-0138

CF(0)

3 of 3

2.46

2.5

1.95e-05

KW-1003

Cell membrane

8 of 136

1.23

1.67

7.84e-08

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF02874

ATP synthase alpha/beta family, beta-barrel domain

2 of 2

2.46

0.83

0.0311

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