U27_02291 protein (Vecturithrix granuli) - STRING interaction network

Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

Node Color

colored nodes:
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:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

U27_02291

Slr1855 protein. (618 aa)

Predicted Functional Partners:

U27_02290

0.887

U27_02295

0.845

U27_02292

0.829

U27_02293

0.753

U27_02297

0.721

U27_04258

0.626

U27_03505

0.625

pgi

0.613

U27_02253

0.596

U27_02296

0.594

Your Current Organism:

Vecturithrix granuli

NCBI taxonomy Id: 1499967
Other names: C. Vecturithrix granuli, Candidatus Vecturithrix granuli, bacterium UASB270

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
U27_02253	U27_02291	U27_02253	U27_02291	Glucosamine/galactosamine-6-phosphate isomerase.	Slr1855 protein.	0.596
U27_02253	pgi	U27_02253	U27_06439	Glucosamine/galactosamine-6-phosphate isomerase.	Glucose-6-phosphate isomerase; Belongs to the GPI family.	0.732
U27_02290	U27_02291	U27_02290	U27_02291	ThiJ/PfpI domain protein.	Slr1855 protein.	0.887
U27_02290	U27_02292	U27_02290	U27_02292	ThiJ/PfpI domain protein.	Anti-sigma factor antagonist; Belongs to the anti-sigma-factor antagonist family.	0.510
U27_02290	U27_02293	U27_02290	U27_02293	ThiJ/PfpI domain protein.	Glycogen debranching enzyme GlgX; Belongs to the glycosyl hydrolase 13 family.	0.460
U27_02290	U27_02295	U27_02290	U27_02295	ThiJ/PfpI domain protein.	Anti-sigma factor antagonist.	0.595
U27_02290	U27_02296	U27_02290	U27_02296	ThiJ/PfpI domain protein.	Protein serine phosphatase with GAF(S) sensor(S).	0.671
U27_02291	U27_02253	U27_02291	U27_02253	Slr1855 protein.	Glucosamine/galactosamine-6-phosphate isomerase.	0.596
U27_02291	U27_02290	U27_02291	U27_02290	Slr1855 protein.	ThiJ/PfpI domain protein.	0.887
U27_02291	U27_02292	U27_02291	U27_02292	Slr1855 protein.	Anti-sigma factor antagonist; Belongs to the anti-sigma-factor antagonist family.	0.829
U27_02291	U27_02293	U27_02291	U27_02293	Slr1855 protein.	Glycogen debranching enzyme GlgX; Belongs to the glycosyl hydrolase 13 family.	0.753
U27_02291	U27_02295	U27_02291	U27_02295	Slr1855 protein.	Anti-sigma factor antagonist.	0.845
U27_02291	U27_02296	U27_02291	U27_02296	Slr1855 protein.	Protein serine phosphatase with GAF(S) sensor(S).	0.594
U27_02291	U27_02297	U27_02291	U27_02297	Slr1855 protein.	Putative anti-sigma regulatory factor, serine/threonine protein kinase.	0.721
U27_02291	U27_03505	U27_02291	U27_03505	Slr1855 protein.	Hypothetical protein.	0.625
U27_02291	U27_04258	U27_02291	U27_04258	Slr1855 protein.	Anti-sigma factor antagonist; Belongs to the anti-sigma-factor antagonist family.	0.626
U27_02291	pgi	U27_02291	U27_06439	Slr1855 protein.	Glucose-6-phosphate isomerase; Belongs to the GPI family.	0.613
U27_02292	U27_02290	U27_02292	U27_02290	Anti-sigma factor antagonist; Belongs to the anti-sigma-factor antagonist family.	ThiJ/PfpI domain protein.	0.510
U27_02292	U27_02291	U27_02292	U27_02291	Anti-sigma factor antagonist; Belongs to the anti-sigma-factor antagonist family.	Slr1855 protein.	0.829
U27_02292	U27_02293	U27_02292	U27_02293	Anti-sigma factor antagonist; Belongs to the anti-sigma-factor antagonist family.	Glycogen debranching enzyme GlgX; Belongs to the glycosyl hydrolase 13 family.	0.784

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

17

average node degree:

3.09

avg. local clustering coefficient:

0.923

expected number of edges:

11

PPI enrichment p-value:

0.0526

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:0042273

Ribosomal large subunit biogenesis

7 of 129

1.95

3.9

3.64e-10

GO:0000463

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

5 of 48

2.23

3.62

3.87e-08

GO:0042254

Ribosome biogenesis

11 of 536

1.52

3.19

8.87e-14

GO:0030490

Maturation of SSU-rRNA

6 of 125

1.89

3.19

3.08e-08

GO:0006364

rRNA processing

9 of 400

1.56

2.93

1.24e-10

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030515

snoRNA binding

4 of 45

2.16

2.38

1.87e-05

GO:0003723

RNA binding

9 of 1125

1.11

1.31

1.81e-06

GO:0042134

rRNA primary transcript binding

2 of 12

2.43

0.95

0.0181

GO:0003724

RNA helicase activity

3 of 113

1.64

0.84

0.0196

GO:0005488

Binding

11 of 7915

0.35

0.26

0.0422

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030689

Noc complex

4 of 8

2.91

4.46

5.53e-09

GO:0030684

Preribosome

8 of 178

1.86

4.12

9.52e-12

GO:0005730

Nucleolus

11 of 476

1.58

3.55

5.47e-15

GO:0030686

90S preribosome

4 of 56

2.07

2.64

3.42e-06

GO:0030687

Preribosome, large subunit precursor

4 of 59

2.04

2.6

3.82e-06

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:9923

Maturation of SSU-rRNA, and Small-subunit processome

6 of 131

1.87

2.85

2.52e-07

CL:9931

Small-subunit processome, and Endonucleolytic cleavage to generate mature 5-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)

5 of 91

1.95

2.57

2.81e-06

CL:10188

Preribosome, large subunit precursor, and Maturation of LSU-rRNA

5 of 95

1.93

2.56

2.81e-06

CL:10205

Preribosome, large subunit precursor, and Nop2p

4 of 47

2.14

2.55

7.42e-06

CL:9940

Small-subunit processome

4 of 74

1.94

2.19

2.59e-05

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-6791226

Major pathway of rRNA processing in the nucleolus and cytosol

8 of 257

1.7

3.28

3.28e-10

MAP-8868773

rRNA processing in the nucleus and cytosol

8 of 263

1.69

3.25

3.28e-10

MAP-72312

rRNA processing

8 of 272

1.68

3.21

3.28e-10

MAP-8953854

Metabolism of RNA

8 of 1097

1.07

1.19

7.15e-06

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0030684

Preribosome

8 of 153

1.93

4.35

7.47e-12

GOCC:0030686

90S preribosome

6 of 62

2.2

4.29

7.04e-10

GOCC:0030689

Noc complex

4 of 12

2.73

3.86

6.02e-08

GOCC:0030691

Noc2p-Noc3p complex

2 of 4

2.91

1.63

0.0011

GOCC:0030690

Noc1p-Noc2p complex

2 of 4

2.91

1.63

0.0011

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF06732

Pescadillo N-terminus

2 of 2

3.21

1.25

0.0057

PF04147

Nop14-like family

2 of 2

3.21

1.25

0.0057

PF03715

Noc2p family

2 of 2

3.21

1.25

0.0057

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR045209

rRNA biogenesis protein Rrp5

2 of 2

3.21

1.01

0.0151

IPR010613

Pescadillo

2 of 2

3.21

1.01

0.0151

IPR007276

Nucleolar protein 14

2 of 2

3.21

1.01

0.0151

IPR005343

Nucleolar complex protein 2

2 of 2

3.21

1.01

0.0151

IPR011545

DEAD/DEAH box helicase domain

3 of 88

1.74

0.78

0.0299

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00316

Ribosomal protein S1-like RNA-binding domain

2 of 14

2.37

0.9

0.0228

SM00386

HAT (Half-A-TPR) repeats

2 of 16

2.31

0.89

0.0228

SM00490

Helicase superfamily c-terminal domain

3 of 149

1.52

0.79

0.0228

SM00487

DEAD-like helicases superfamily

3 of 152

1.51

0.78

0.0228

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (22%) [HD]

Permalink

Network

Neighborhood

Experiments

Fusion

Databases

Cooccurrence

Textmining

Coexpression

© STRING Consortium 2024

Credits

Access

Info

About