APT56004.1 protein (Roseomonas gilardii) - STRING interaction network

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Known Interactions

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experimentally determined

Predicted Interactions

gene neighborhood

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gene co-occurrence

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protein homology

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[Homology]

Score

APT56004.1

ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology. (376 aa)

Predicted Functional Partners:

APT57644.1

0.909

APT57643.1

0.908

APT59509.1

0.750

APT55761.1

0.729

APT59671.1

0.695

APT58829.1

0.686

APT59672.1

0.678

APT58533.1

0.572

APT58283.1

0.565

APT58316.1

0.552

Your Current Organism:

Roseomonas gilardii

NCBI taxonomy Id: 257708
Other names: ATCC 49956, CCUG 33005, CIP 104026, R. gilardii, strain 5424

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
APT55761.1	APT56004.1	RGI145_00090	RGI145_01615	Histidinol phosphatase; 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.	0.729
APT55761.1	APT57643.1	RGI145_00090	RGI145_11530	Histidinol phosphatase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Iron ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily.	0.970
APT55761.1	APT58829.1	RGI145_00090	RGI145_18655	Histidinol phosphatase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: GeneMarkS+.	0.753
APT55761.1	APT59509.1	RGI145_00090	RGI145_19225	Histidinol phosphatase; Derived by automated computational analysis using gene prediction method: Protein Homology.	ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily.	0.971
APT55761.1	APT59671.1	RGI145_00090	RGI145_20300	Histidinol phosphatase; Derived by automated computational analysis using gene prediction method: Protein Homology.	Iron ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily.	0.978
APT56004.1	APT55761.1	RGI145_01615	RGI145_00090	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Histidinol phosphatase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.729
APT56004.1	APT57643.1	RGI145_01615	RGI145_11530	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Iron ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily.	0.908
APT56004.1	APT57644.1	RGI145_01615	RGI145_11535	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Iron ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.909
APT56004.1	APT58283.1	RGI145_01615	RGI145_15340	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.	0.565
APT56004.1	APT58316.1	RGI145_01615	RGI145_15555	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Methicillin resistance protein FmtA; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.552
APT56004.1	APT58533.1	RGI145_01615	RGI145_16865	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Ferrichrome-iron receptor; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.572
APT56004.1	APT58829.1	RGI145_01615	RGI145_18655	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: GeneMarkS+.	0.686
APT56004.1	APT59509.1	RGI145_01615	RGI145_19225	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily.	0.750
APT56004.1	APT59671.1	RGI145_01615	RGI145_20300	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	Iron ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily.	0.695
APT56004.1	APT59672.1	RGI145_01615	RGI145_20305	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.	0.678
APT57643.1	APT55761.1	RGI145_11530	RGI145_00090	Iron ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily.	Histidinol phosphatase; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.970
APT57643.1	APT56004.1	RGI145_11530	RGI145_01615	Iron ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily.	ABC transporter substrate-binding protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.908
APT57643.1	APT57644.1	RGI145_11530	RGI145_11535	Iron ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily.	Iron ABC transporter; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.992
APT57643.1	APT59672.1	RGI145_11530	RGI145_20305	Iron ABC transporter permease; Derived by automated computational analysis using gene prediction method: Protein Homology; Belongs to the binding-protein-dependent transport system permease family. FecCD subfamily.	Hypothetical protein; Derived by automated computational analysis using gene prediction method: Protein Homology.	0.962
APT57644.1	APT56004.1	RGI145_11535	RGI145_01615	Iron ABC transporter; 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.	0.909

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Network Stats

number of nodes:

11

number of edges:

31

average node degree:

5.64

avg. local clustering coefficient:

0.866

expected number of edges:

12

PPI enrichment p-value:

4.14e-06

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:0044272

Sulfur compound biosynthetic process

10 of 25

1.76

4.24

5.16e-14

GO:0006085

acetyl-CoA biosynthetic process

3 of 4

2.04

1.55

0.00094

GO:0006082

Organic acid metabolic process

10 of 155

0.97

1.11

2.70e-07

GO:0006086

acetyl-CoA biosynthetic process from pyruvate

2 of 3

1.99

0.95

0.0153

GO:1901576

Organic substance biosynthetic process

10 of 378

0.58

0.48

0.00075

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016903

Oxidoreductase activity, acting on the aldehyde or oxo group of donors

4 of 14

1.62

1.41

0.00068

GO:0030976

Thiamine pyrophosphate binding

3 of 5

1.94

1.4

0.0017

GO:0016625

Oxidoreductase activity, acting on the aldehyde or oxo group of donors, iron-sulfur protein as acceptor

3 of 6

1.86

1.37

0.0017

GO:0016491

Oxidoreductase activity

8 of 115

1.0

5.02e-05

GO:0003824

Catalytic activity

11 of 692

0.36

0.3

0.0060

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:969

Butanoate metabolism

6 of 6

2.16

4.2

8.38e-10

CL:964

Citrate cycle (TCA cycle), and Cysteine-rich domain

9 of 20

1.82

4.19

9.45e-13

CL:965

Glycolysis / Gluconeogenesis

7 of 12

1.93

3.96

1.69e-10

CL:961

Mixed, incl. Glycolysis / Gluconeogenesis, and Citrate cycle (TCA cycle)

10 of 51

1.45

2.75

4.41e-12

CL:989

Indolepyruvate ferredoxin oxidoreductase activity, and FAD binding domain

2 of 5

1.76

0.84

0.0229

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00650

Butanoate metabolism

8 of 13

1.95

4.66

8.95e-13

map00010

Glycolysis / Gluconeogenesis

9 of 19

1.84

4.49

8.54e-14

map00720

Carbon fixation pathways in prokaryotes

10 of 30

1.68

3.95

2.63e-14

map00020

Citrate cycle (TCA cycle)

8 of 19

1.79

3.91

5.80e-12

map00640

Propanoate metabolism

7 of 17

1.78

3.51

2.57e-10

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005618

Cell wall

2 of 2

2.16

0.74

0.0433

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0560

Oxidoreductase

4 of 34

1.23

0.81

0.0098

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF01855

Pyruvate flavodoxin/ferredoxin oxidoreductase, thiamine diP-bdg

5 of 5

2.16

3.17

3.01e-07

PF02775

Thiamine pyrophosphate enzyme, C-terminal TPP binding domain

4 of 6

1.99

2.2

2.86e-05

PF17147

Pyruvate:ferredoxin oxidoreductase core domain II

3 of 3

2.16

1.78

0.00037

PF01558

Pyruvate ferredoxin/flavodoxin oxidoreductase

3 of 4

2.04

1.68

0.00048

PF00037

4Fe-4S binding domain

3 of 9

1.68

1.24

0.0024

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR029061

Thiamin diphosphate-binding fold

4 of 6

1.99

1.95

0.00011

IPR011766

Thiamine pyrophosphate enzyme, TPP-binding

4 of 6

1.99

1.95

0.00011

IPR017900

4Fe-4S ferredoxin, iron-sulphur binding, conserved site

4 of 15

1.59

1.41

0.00063

IPR017896

4Fe-4S ferredoxin-type, iron-sulphur binding domain

4 of 19

1.49

1.25

0.0011

IPR009014

Transketolase C-terminal/Pyruvate-ferredoxin oxidoreductase domain II

2 of 2

2.16

0.89

0.0219

(more ...)

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