SEA28738.1 protein (Arachidicoccus rhizosphaerae)

Nodes:

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second shell of interactors

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proteins of unknown 3D structure

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a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

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Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

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[Homology]

Score

SEA28738.1

Peptidase. (810 aa)

Predicted Functional Partners:

SDZ77315.1

0.696

SDZ77325.1

0.682

SDZ77340.1

0.672

SDZ87097.1

0.608

SEA66626.1

0.600

SDZ74239.1

0.592

SEA47091.1

0.571

SDZ86339.1

0.555

SEA07245.1

0.552

SDZ96576.1

0.530

Your Current Organism:

Arachidicoccus rhizosphaerae

NCBI taxonomy Id: 551991
Other names: A. rhizosphaerae, Arachidicoccus rhizosphaerae Madhaiyan et al. 2015, Flavisolibacter sp. Vu-144, Flavisolibacter sp. Vu-35, Flavisolibacter sp. Vu-7, KCTC 22378, NCIMB 14473, strain Vu-144

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SDZ74239.1	SDZ77325.1	SAMN05192529_101134	SAMN05192529_101388	Protein of unknown function.	Starch-binding associating with outer membrane.	0.401
SDZ74239.1	SDZ86339.1	SAMN05192529_101134	SAMN05192529_10317	Protein of unknown function.	Starch-binding associating with outer membrane.	0.545
SDZ74239.1	SEA28738.1	SAMN05192529_101134	SAMN05192529_112114	Protein of unknown function.	Peptidase.	0.592
SDZ77315.1	SDZ77325.1	SAMN05192529_101387	SAMN05192529_101388	F5/8 type C domain-containing protein.	Starch-binding associating with outer membrane.	0.886
SDZ77315.1	SDZ77340.1	SAMN05192529_101387	SAMN05192529_101389	F5/8 type C domain-containing protein.	TonB-linked outer membrane protein, SusC/RagA family.	0.856
SDZ77315.1	SDZ96576.1	SAMN05192529_101387	SAMN05192529_10565	F5/8 type C domain-containing protein.	Type I phosphodiesterase / nucleotide pyrophosphatase.	0.474
SDZ77315.1	SEA28738.1	SAMN05192529_101387	SAMN05192529_112114	F5/8 type C domain-containing protein.	Peptidase.	0.696
SDZ77315.1	SEA66626.1	SAMN05192529_101387	SAMN05192529_1427	F5/8 type C domain-containing protein.	Lysophospholipase L1.	0.447
SDZ77325.1	SDZ74239.1	SAMN05192529_101388	SAMN05192529_101134	Starch-binding associating with outer membrane.	Protein of unknown function.	0.401
SDZ77325.1	SDZ77315.1	SAMN05192529_101388	SAMN05192529_101387	Starch-binding associating with outer membrane.	F5/8 type C domain-containing protein.	0.886
SDZ77325.1	SDZ77340.1	SAMN05192529_101388	SAMN05192529_101389	Starch-binding associating with outer membrane.	TonB-linked outer membrane protein, SusC/RagA family.	0.924
SDZ77325.1	SDZ87097.1	SAMN05192529_101388	SAMN05192529_10368	Starch-binding associating with outer membrane.	Protein of unknown function.	0.411
SDZ77325.1	SEA28738.1	SAMN05192529_101388	SAMN05192529_112114	Starch-binding associating with outer membrane.	Peptidase.	0.682
SDZ77325.1	SEA66626.1	SAMN05192529_101388	SAMN05192529_1427	Starch-binding associating with outer membrane.	Lysophospholipase L1.	0.425
SDZ77340.1	SDZ77315.1	SAMN05192529_101389	SAMN05192529_101387	TonB-linked outer membrane protein, SusC/RagA family.	F5/8 type C domain-containing protein.	0.856
SDZ77340.1	SDZ77325.1	SAMN05192529_101389	SAMN05192529_101388	TonB-linked outer membrane protein, SusC/RagA family.	Starch-binding associating with outer membrane.	0.924
SDZ77340.1	SDZ86339.1	SAMN05192529_101389	SAMN05192529_10317	TonB-linked outer membrane protein, SusC/RagA family.	Starch-binding associating with outer membrane.	0.706
SDZ77340.1	SEA07245.1	SAMN05192529_101389	SAMN05192529_107134	TonB-linked outer membrane protein, SusC/RagA family.	Starch-binding associating with outer membrane.	0.763
SDZ77340.1	SEA28738.1	SAMN05192529_101389	SAMN05192529_112114	TonB-linked outer membrane protein, SusC/RagA family.	Peptidase.	0.672
SDZ77340.1	SEA47091.1	SAMN05192529_101389	SAMN05192529_12117	TonB-linked outer membrane protein, SusC/RagA family.	Starch-binding associating with outer membrane.	0.766

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Network Stats

number of nodes:

11

number of edges:

27

average node degree:

4.91

avg. local clustering coefficient:

0.859

expected number of edges:

23

PPI enrichment p-value:

0.21

your network does not have 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:0042254

Ribosome biogenesis

11 of 265

1.96

5.98

3.12e-18

GO:0006364

rRNA processing

9 of 178

2.04

5.49

1.29e-14

GO:0030490

Maturation of SSU-rRNA

3 of 35

2.27

1.87

0.00027

GO:0000462

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

2 of 24

2.26

0.87

0.0252

GO:0000154

rRNA modification

2 of 32

2.13

0.75

0.0413

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030515

snoRNA binding

4 of 29

2.48

3.09

1.31e-06

GO:0003723

RNA binding

11 of 1204

1.3

2.17

1.45e-11

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0032040

Small-subunit processome

8 of 39

2.65

8.4

1.20e-17

GO:0030684

Preribosome

9 of 69

2.45

8.23

1.75e-18

GO:0005730

Nucleolus

11 of 549

1.64

3.98

4.30e-16

GO:0005732

sno(s)RNA-containing ribonucleoprotein complex

4 of 26

2.53

3.68

9.17e-08

GO:0030686

90S preribosome

4 of 28

2.49

3.62

1.08e-07

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:15115

Small-subunit processome, and Positive regulation of rRNA processing

11 of 35

2.84

13.24

1.72e-27

CL:15117

Small-subunit processome, and Positive regulation of rRNA processing

10 of 30

2.86

12.28

3.74e-25

CL:15120

Small-subunit processome, and AARP2CN (NUC121) domain

7 of 23

2.82

8.09

2.40e-16

CL:15121

Small-subunit processome

6 of 17

2.89

7.01

5.36e-14

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03008

Ribosome biogenesis in eukaryotes

9 of 119

2.22

6.95

2.80e-17

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-8868773

rRNA processing in the nucleus and cytosol

11 of 217

2.04

6.81

7.49e-20

MAP-72312

rRNA processing

11 of 229

2.02

6.68

7.49e-20

MAP-6791226

Major pathway of rRNA processing in the nucleolus and cytosol

10 of 212

2.01

6.07

2.28e-17

MAP-8953854

Metabolism of RNA

11 of 934

1.41

2.72

1.40e-13

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0030684

Preribosome

6 of 45

2.46

5.16

4.82e-11

GOCC:0031428

Box C/D snoRNP complex

3 of 6

3.04

3.09

2.32e-06

GOCC:1990904

Ribonucleoprotein complex

8 of 441

1.6

2.83

1.72e-09

GOCC:0005730

Nucleolus

6 of 215

1.78

2.8

1.31e-07

GOCC:0032040

Small-subunit processome

2 of 8

2.74

1.6

0.0012

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0853

WD repeat

5 of 281

1.59

1.8

3.67e-05

KW-0698

rRNA processing

2 of 23

2.28

1.07

0.0103

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF08156

NOP5NT (NUC127) domain

2 of 2

3.34

1.43

0.0027

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00931

NOSIC (NUC001) domain

2 of 3

3.16

1.73

0.00077

SM00320

WD40 repeats

5 of 291

1.57

1.66

9.63e-05

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