SDM69104.1 protein (Siphonobacter aquaeclarae)

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

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empty nodes:
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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[Homology]

Score

SDM69104.1

Hypothetical protein. (333 aa)

Predicted Functional Partners:

SDM27700.1

0.907

SDM69052.1

0.757

SDM69075.1

0.757

SDM66123.1

0.749

SDM89217.1

0.749

queE

0.695

SDM71958.1

0.693

SDM67738.1

0.688

SDM87527.1

0.688

SDM69132.1

0.663

Your Current Organism:

Siphonobacter aquaeclarae

NCBI taxonomy Id: 563176
Other names: DSM 21668, Flexibacteraceae bacterium P2, NCAIM B 02328, S. aquaeclarae, Siphonobacter aquaeclarae Tancsics et al. 2010, strain P2

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SDM27700.1	SDM66123.1	SAMN04488090_3082	SAMN04488090_3934	Acyl-CoA reductase (LuxC).	ring-1,2-phenylacetyl-CoA epoxidase subunit PaaE.	0.711
SDM27700.1	SDM69104.1	SAMN04488090_3082	SAMN04488090_4031	Acyl-CoA reductase (LuxC).	Hypothetical protein.	0.907
SDM27700.1	SDM89217.1	SAMN04488090_3082	SAMN04488090_4476	Acyl-CoA reductase (LuxC).	ring-1,2-phenylacetyl-CoA epoxidase subunit PaaE.	0.711
SDM27700.1	queE	SAMN04488090_3082	SAMN04488090_2933	Acyl-CoA reductase (LuxC).	Organic radical activating enzyme; Catalyzes the complex heterocyclic radical-mediated conversion of 6-carboxy-5,6,7,8-tetrahydropterin (CPH4) to 7-carboxy-7- deazaguanine (CDG), a step common to the biosynthetic pathways of all 7-deazapurine-containing compounds.	0.619
SDM66123.1	SDM27700.1	SAMN04488090_3934	SAMN04488090_3082	ring-1,2-phenylacetyl-CoA epoxidase subunit PaaE.	Acyl-CoA reductase (LuxC).	0.711
SDM66123.1	SDM69052.1	SAMN04488090_3934	SAMN04488090_4029	ring-1,2-phenylacetyl-CoA epoxidase subunit PaaE.	NAD(P)-dependent dehydrogenase, short-chain alcohol dehydrogenase family.	0.753
SDM66123.1	SDM69104.1	SAMN04488090_3934	SAMN04488090_4031	ring-1,2-phenylacetyl-CoA epoxidase subunit PaaE.	Hypothetical protein.	0.749
SDM66123.1	SDM71958.1	SAMN04488090_3934	SAMN04488090_4124	ring-1,2-phenylacetyl-CoA epoxidase subunit PaaE.	Quinol:cytochrome c oxidoreductase iron-sulfur protein precursor.	0.932
SDM66123.1	SDM89217.1	SAMN04488090_3934	SAMN04488090_4476	ring-1,2-phenylacetyl-CoA epoxidase subunit PaaE.	ring-1,2-phenylacetyl-CoA epoxidase subunit PaaE.	0.856
SDM67738.1	SDM69104.1	SAMN04488090_3983	SAMN04488090_4031	Capsular exopolysaccharide family.	Hypothetical protein.	0.688
SDM67738.1	SDM87527.1	SAMN04488090_3983	SAMN04488090_4422	Capsular exopolysaccharide family.	Chromosome partitioning ATPase, Mrp family, contains Fe-S cluster.	0.778
SDM69052.1	SDM66123.1	SAMN04488090_4029	SAMN04488090_3934	NAD(P)-dependent dehydrogenase, short-chain alcohol dehydrogenase family.	ring-1,2-phenylacetyl-CoA epoxidase subunit PaaE.	0.753
SDM69052.1	SDM69075.1	SAMN04488090_4029	SAMN04488090_4030	NAD(P)-dependent dehydrogenase, short-chain alcohol dehydrogenase family.	Protein of unknown function.	0.773
SDM69052.1	SDM69104.1	SAMN04488090_4029	SAMN04488090_4031	NAD(P)-dependent dehydrogenase, short-chain alcohol dehydrogenase family.	Hypothetical protein.	0.757
SDM69052.1	SDM69132.1	SAMN04488090_4029	SAMN04488090_4032	NAD(P)-dependent dehydrogenase, short-chain alcohol dehydrogenase family.	Hypothetical protein.	0.525
SDM69052.1	SDM89217.1	SAMN04488090_4029	SAMN04488090_4476	NAD(P)-dependent dehydrogenase, short-chain alcohol dehydrogenase family.	ring-1,2-phenylacetyl-CoA epoxidase subunit PaaE.	0.753
SDM69075.1	SDM69052.1	SAMN04488090_4030	SAMN04488090_4029	Protein of unknown function.	NAD(P)-dependent dehydrogenase, short-chain alcohol dehydrogenase family.	0.773
SDM69075.1	SDM69104.1	SAMN04488090_4030	SAMN04488090_4031	Protein of unknown function.	Hypothetical protein.	0.757
SDM69075.1	SDM69132.1	SAMN04488090_4030	SAMN04488090_4032	Protein of unknown function.	Hypothetical protein.	0.814
SDM69104.1	SDM27700.1	SAMN04488090_4031	SAMN04488090_3082	Hypothetical protein.	Acyl-CoA reductase (LuxC).	0.907

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

33

PPI enrichment p-value:

9.21e-05

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:0006412

Translation

10 of 106

1.46

2.69

1.87e-11

GO:0010467

Gene expression

11 of 221

1.18

1.79

3.26e-11

GO:0044260

Cellular macromolecule metabolic process

11 of 392

0.93

1.1

7.75e-09

GO:0034641

Cellular nitrogen compound metabolic process

11 of 612

0.74

0.73

6.79e-07

GO:0044238

Primary metabolic process

11 of 1142

0.47

0.4

0.00040

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003735

Structural constituent of ribosome

10 of 53

1.76

4.31

1.72e-14

GO:0019843

rRNA binding

4 of 41

1.47

1.18

0.0018

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005840

Ribosome

10 of 56

1.74

4.28

5.58e-15

GO:0044391

Ribosomal subunit

2 of 15

1.61

0.81

0.0228

GO:0005622

Intracellular anatomical structure

11 of 1225

0.44

0.38

0.00033

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:32228805

(2020) Lactobacillus garii sp. nov., isolated from a fermented cassava product.

8 of 27

1.96

4.58

2.10e-12

PMID:36613254

(2022) Comparative Genomics Analysis Provides New Insights into High Ethanol Tolerance of Lactiplantibacillus pentosus LTJ12, a Novel Strain Isolated from Chinese Baijiu.

7 of 52

1.61

2.71

1.24e-08

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:174

Ribosome

6 of 11

2.22

4.55

1.93e-10

CL:103

Ribosome, and Translation regulator activity

11 of 73

1.66

4.05

9.08e-16

CL:176

Ribosome

4 of 5

2.39

3.28

4.18e-07

CL:105

Structural constituent of ribosome, and Translation elongation factor activity

8 of 67

1.56

2.84

4.11e-10

CL:220

Mixed, incl. Small ribosomal subunit, and K homology domain superfamily, prokaryotic type

2 of 8

1.88

0.89

0.0192

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

lpg03010

Ribosome

10 of 50

1.79

4.6

1.55e-15

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005840

Ribosome

8 of 44

1.74

3.53

7.51e-11

GOCC:0044391

Ribosomal subunit

4 of 23

1.72

1.92

4.42e-05

GOCC:0043229

Intracellular organelle

10 of 272

1.05

1.32

1.90e-08

GOCC:0015934

Large ribosomal subunit

2 of 10

1.79

0.89

0.0178

GOCC:0015935

Small ribosomal subunit

2 of 13

1.67

0.8

0.0253

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0689

Ribosomal protein

10 of 54

1.75

4.35

5.98e-15

KW-0699

rRNA-binding

4 of 40

1.48

1.37

0.00048

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