SDF82442.1 protein (Limimonas halophila) - STRING interaction network

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Known Interactions

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experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

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protein homology

Your Input:

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Score

SDF82442.1

Inorganic triphosphatase YgiF, contains CYTH and CHAD domains. (535 aa)

Predicted Functional Partners:

SDF82469.1

0.697

SDF82504.1

0.697

SDF82537.1

0.697

SDF82570.1

0.697

SDG24693.1

0.493

purM

0.475

purN

0.475

SDF93916.1

0.447

SDG34738.1

0.437

SDG24564.1

0.418

Your Current Organism:

Limimonas halophila

NCBI taxonomy Id: 1082479
Other names: DSM 25584, IBRC-M 10018, L. halophila, Limimonas halophila Amoozegar et al. 2013, Rhodospirillaceae bacterium Ia16, strain IA16

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SDF82442.1	SDF82469.1	SAMN05216241_102469	SAMN05216241_102470	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	DnaA regulatory inactivator Hda; Belongs to the DnaA family.	0.697
SDF82442.1	SDF82504.1	SAMN05216241_102469	SAMN05216241_102471	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	Predicted PurR-regulated permease PerM.	0.697
SDF82442.1	SDF82537.1	SAMN05216241_102469	SAMN05216241_102472	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	Cardiolipin synthase.	0.697
SDF82442.1	SDF82570.1	SAMN05216241_102469	SAMN05216241_102473	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	Hypothetical protein.	0.697
SDF82442.1	SDF93916.1	SAMN05216241_102469	SAMN05216241_103247	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	Hypothetical protein.	0.447
SDF82442.1	SDG24564.1	SAMN05216241_102469	SAMN05216241_10781	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	Porin.	0.418
SDF82442.1	SDG24693.1	SAMN05216241_102469	SAMN05216241_10786	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	Hypothetical protein.	0.493
SDF82442.1	SDG34738.1	SAMN05216241_102469	SAMN05216241_10988	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	Hypothetical protein.	0.437
SDF82442.1	purM	SAMN05216241_102469	SAMN05216241_102474	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	Phosphoribosylformylglycinamidine cyclo-ligase.	0.475
SDF82442.1	purN	SAMN05216241_102469	SAMN05216241_102475	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	Phosphoribosylglycinamide formyltransferase-1; Catalyzes the transfer of a formyl group from 10- formyltetrahydrofolate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR) and tetrahydrofolate.	0.475
SDF82469.1	SDF82442.1	SAMN05216241_102470	SAMN05216241_102469	DnaA regulatory inactivator Hda; Belongs to the DnaA family.	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	0.697
SDF82469.1	SDF82504.1	SAMN05216241_102470	SAMN05216241_102471	DnaA regulatory inactivator Hda; Belongs to the DnaA family.	Predicted PurR-regulated permease PerM.	0.981
SDF82469.1	SDF82537.1	SAMN05216241_102470	SAMN05216241_102472	DnaA regulatory inactivator Hda; Belongs to the DnaA family.	Cardiolipin synthase.	0.842
SDF82469.1	SDF82570.1	SAMN05216241_102470	SAMN05216241_102473	DnaA regulatory inactivator Hda; Belongs to the DnaA family.	Hypothetical protein.	0.841
SDF82469.1	purM	SAMN05216241_102470	SAMN05216241_102474	DnaA regulatory inactivator Hda; Belongs to the DnaA family.	Phosphoribosylformylglycinamidine cyclo-ligase.	0.682
SDF82469.1	purN	SAMN05216241_102470	SAMN05216241_102475	DnaA regulatory inactivator Hda; Belongs to the DnaA family.	Phosphoribosylglycinamide formyltransferase-1; Catalyzes the transfer of a formyl group from 10- formyltetrahydrofolate to 5-phospho-ribosyl-glycinamide (GAR), producing 5-phospho-ribosyl-N-formylglycinamide (FGAR) and tetrahydrofolate.	0.665
SDF82504.1	SDF82442.1	SAMN05216241_102471	SAMN05216241_102469	Predicted PurR-regulated permease PerM.	Inorganic triphosphatase YgiF, contains CYTH and CHAD domains.	0.697
SDF82504.1	SDF82469.1	SAMN05216241_102471	SAMN05216241_102470	Predicted PurR-regulated permease PerM.	DnaA regulatory inactivator Hda; Belongs to the DnaA family.	0.981
SDF82504.1	SDF82537.1	SAMN05216241_102471	SAMN05216241_102472	Predicted PurR-regulated permease PerM.	Cardiolipin synthase.	0.841
SDF82504.1	SDF82570.1	SAMN05216241_102471	SAMN05216241_102473	Predicted PurR-regulated permease PerM.	Hypothetical protein.	0.841

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

36

average node degree:

6.55

avg. local clustering coefficient:

0.876

expected number of edges:

11

PPI enrichment p-value:

1.44e-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:0046395

Carboxylic acid catabolic process

6 of 155

1.71

2.25

3.69e-06

GO:0044282

Small molecule catabolic process

7 of 235

1.6

2.24

1.00e-06

GO:0009063

Cellular amino acid catabolic process

4 of 77

1.84

1.69

0.00029

GO:0006520

Cellular amino acid metabolic process

5 of 205

1.51

1.45

0.00029

GO:0019752

Carboxylic acid metabolic process

7 of 555

1.22

1.28

7.10e-05

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016405

CoA-ligase activity

3 of 15

2.42

1.69

0.00070

GO:0016878

Acid-thiol ligase activity

3 of 22

2.26

1.59

0.00098

GO:0050218

propionate-CoA ligase activity

2 of 2

3.12

1.54

0.0017

GO:0003987

acetate-CoA ligase activity

2 of 2

3.12

1.54

0.0017

GO:0016491

Oxidoreductase activity

6 of 600

1.12

0.92

0.0017

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005739

Mitochondrion

10 of 1137

1.07

1.31

1.27e-07

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:18031

Valine, leucine and isoleucine degradation, and Peroxisomal lipid metabolism

8 of 80

2.12

5.23

6.40e-13

CL:18143

Aldehyde dehydrogenase family, and Branched-chain amino acid catabolism

5 of 15

2.65

4.71

1.01e-09

CL:18145

Degradation of GABA, and Phytol metabolic process

3 of 5

2.9

2.75

9.32e-06

CL:18032

Fatty acid beta-oxidation, and Biotin transport and metabolism

3 of 55

1.86

1.19

0.0043

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00280

Valine, leucine and isoleucine degradation

7 of 53

2.24

5.4

1.55e-12

map00640

Propanoate metabolism

4 of 35

2.18

2.87

1.63e-06

map00410

beta-Alanine metabolism

3 of 31

2.11

1.93

0.00016

map00380

Tryptophan metabolism

3 of 44

1.96

1.73

0.00033

map00250

Alanine, aspartate and glutamate metabolism

3 of 43

1.97

1.73

0.00033

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-71384

Ethanol oxidation

2 of 5

2.73

1.13

0.0089

MAP-1430728

Metabolism

10 of 1828

0.86

0.85

1.56e-05

MAP-71291

Metabolism of amino acids and derivatives

4 of 252

1.32

0.79

0.0152

MAP-211945

Phase I - Functionalization of compounds

3 of 105

1.58

0.78

0.0257

MAP-70895

Branched-chain amino acid catabolism

2 of 20

2.12

0.76

0.0390

(more ...)

Tissue Expression (TISSUES)

tissue

description

count in network

strength

signal

false discovery rate

BTO:0000759

Liver

5 of 504

1.12

0.6

0.0336

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005739

Mitochondrion

9 of 637

1.27

1.79

5.05e-08

GOCC:0005737

Cytoplasm

10 of 4348

0.48

0.32

0.0360

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0560

Oxidoreductase

4 of 157

1.53

1.25

0.0014

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF13193

AMP-binding enzyme C-terminal domain

3 of 10

2.6

2.05

0.00016

PF00501

AMP-binding enzyme

3 of 21

2.28

1.72

0.00056

PF16177

Acetyl-coenzyme A synthetase N-terminus

2 of 2

3.12

1.52

0.0018

PF00202

Aminotransferase class-III

2 of 5

2.73

1.28

0.0048

PF00171

Aldehyde dehydrogenase family

2 of 16

2.22

0.84

0.0276

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR025110

AMP-binding enzyme, C-terminal domain

3 of 11

2.56

1.78

0.00053

IPR045851

AMP-binding enzyme, C-terminal domain superfamily

3 of 12

2.52

1.77

0.00053

IPR042099

ANL, N-terminal domain

3 of 13

2.49

1.77

0.00053

IPR020845

AMP-binding, conserved site

3 of 12

2.52

1.77

0.00053

IPR000873

AMP-dependent synthetase/ligase domain

3 of 13

2.49

1.77

0.00053

(more ...)

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