AL038_06960 protein (Beggiatoa leptomitoformis)

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

white nodes:
second shell of interactors

Node Content

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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Gene Fusion

Cooccurrence

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Experiments

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[Homology]

Score

AL038_06960

Uncharacterized protein. (698 aa)

Predicted Functional Partners:

AL038_05145

0.980

AL038_07800

0.970

AL038_07890

0.945

AL038_03235

0.876

AL038_05195

0.840

AL038_03885

0.793

AL038_13310

0.782

AL038_01060

0.781

AL038_11700

0.773

AL038_18065

0.763

Your Current Organism:

Beggiatoa leptomitoformis

NCBI taxonomy Id: 288004
Other names: B. leptomitoformis, Beggiatoa leptomitiformis, Beggiatoa leptomitoformis Dubinina et al. 2017, Beggiatoa sp. D-402, DSM 14946, UNIQEM U 779, strain D-402

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Browse interactions in tabular form:

node1	node2	node1 annotation	node2 annotation	score
AL038_01060	AL038_03235	HAMP domain-containing protein.	Uncharacterized protein.	0.772
AL038_01060	AL038_05195	HAMP domain-containing protein.	Uncharacterized protein.	0.725
AL038_01060	AL038_06960	HAMP domain-containing protein.	Uncharacterized protein.	0.781
AL038_01060	AL038_13310	HAMP domain-containing protein.	Hybrid sensor histidine kinase/response regulator.	0.414
AL038_01060	AL038_18065	HAMP domain-containing protein.	Uncharacterized protein.	0.556
AL038_03235	AL038_01060	Uncharacterized protein.	HAMP domain-containing protein.	0.772
AL038_03235	AL038_03885	Uncharacterized protein.	Diguanylate cyclase response regulator.	0.970
AL038_03235	AL038_05145	Uncharacterized protein.	Histidine kinase.	0.860
AL038_03235	AL038_05195	Uncharacterized protein.	Uncharacterized protein.	0.985
AL038_03235	AL038_06960	Uncharacterized protein.	Uncharacterized protein.	0.876
AL038_03235	AL038_07800	Uncharacterized protein.	Uncharacterized protein.	0.973
AL038_03235	AL038_07890	Uncharacterized protein.	Two-component system response regulator.	0.970
AL038_03235	AL038_11700	Uncharacterized protein.	Two-component system response regulator.	0.969
AL038_03235	AL038_13310	Uncharacterized protein.	Hybrid sensor histidine kinase/response regulator.	0.984
AL038_03235	AL038_18065	Uncharacterized protein.	Uncharacterized protein.	0.999
AL038_03885	AL038_03235	Diguanylate cyclase response regulator.	Uncharacterized protein.	0.970
AL038_03885	AL038_05145	Diguanylate cyclase response regulator.	Histidine kinase.	0.766
AL038_03885	AL038_05195	Diguanylate cyclase response regulator.	Uncharacterized protein.	0.966
AL038_03885	AL038_06960	Diguanylate cyclase response regulator.	Uncharacterized protein.	0.793
AL038_03885	AL038_18065	Diguanylate cyclase response regulator.	Uncharacterized protein.	0.642

page 1 of 4

Network Stats

number of nodes:

11

number of edges:

50

average node degree:

9.09

avg. local clustering coefficient:

0.949

expected number of edges:

23

PPI enrichment p-value:

5.57e-07

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:0042274

Ribosomal small subunit biogenesis

6 of 59

1.95

3.11

9.96e-08

GO:0042254

Ribosome biogenesis

8 of 250

1.45

2.15

9.96e-08

GO:0000462

Maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)

3 of 27

1.99

1.41

0.0017

GO:0006364

rRNA processing

5 of 187

1.37

1.22

0.00075

GO:0006412

Translation

5 of 264

1.22

0.97

0.0022

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003735

Structural constituent of ribosome

5 of 143

1.49

1.37

0.00047

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0022627

Cytosolic small ribosomal subunit

4 of 19

2.27

2.68

5.69e-06

GO:0030688

Preribosome, small subunit precursor

3 of 10

2.42

2.29

4.86e-05

GO:0030684

Preribosome

4 of 78

1.65

1.7

0.00012

GO:0005840

Ribosome

5 of 151

1.47

1.61

5.22e-05

GO:1990904

Ribonucleoprotein complex

7 of 382

1.21

1.35

1.65e-05

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:4381

Cytosolic small ribosomal subunit, and GTP hydrolysis and joining of the 60S ribosomal subunit

5 of 20

2.34

3.67

5.20e-08

CL:5063

Preribosome, small subunit precursor, and RIO kinase

4 of 10

2.55

3.25

6.82e-07

CL:5066

Preribosome, small subunit precursor, and rRNA-binding

3 of 5

2.72

2.77

7.73e-06

CL:4383

Cytosolic small ribosomal subunit, and Ribosomal protein L2, domain 2

3 of 13

2.31

2.2

6.15e-05

CL:4397

Mixed, incl. Ribosomal protein S8, and Ribosomal protein S5/S7

2 of 6

2.47

1.41

0.0025

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03010

Ribosome

5 of 167

1.42

1.49

0.00010

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-6791226

Major pathway of rRNA processing in the nucleolus and cytosol

9 of 124

1.81

4.19

6.50e-13

MAP-8868773

rRNA processing in the nucleus and cytosol

9 of 128

1.79

4.14

6.50e-13

MAP-72312

rRNA processing

9 of 132

1.78

4.08

6.50e-13

MAP-72695

Formation of the ternary complex, and subsequently, the 43S complex

5 of 59

1.87

2.67

8.88e-07

MAP-72702

Ribosomal scanning and start codon recognition

5 of 65

1.83

2.57

1.17e-06

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0022627

Cytosolic small ribosomal subunit

5 of 26

2.23

3.45

9.71e-08

GOCC:0030688

Preribosome, small subunit precursor

3 of 13

2.31

2.15

7.73e-05

GOCC:1990904

Ribonucleoprotein complex

8 of 374

1.28

1.7

3.59e-07

GOCC:0032991

Protein-containing complex

9 of 1912

0.62

0.48

0.0017

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0689

Ribosomal protein

5 of 49

1.95

2.87

4.66e-07

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