AGA59175.1 protein (Thermobacillus composti)

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

AGA59175.1

Putative RAMP superfamily protein probably involved in DNA repair; PFAM: RAMP superfamily. (415 aa)

Predicted Functional Partners:

AGA59177.1

0.991

AGA59176.1

0.950

AGA59173.1

0.946

AGA59178.1

0.909

AGA59174.1

0.773

AGA57672.1

0.423

AGA58718.1

0.423

AGA56491.1

0.422

AGA56799.1

0.422

AGA58655.1

0.422

Your Current Organism:

Thermobacillus composti

NCBI taxonomy Id: 717605
Other names: T. composti KWC4, Thermobacillus composti DSM 18247, Thermobacillus composti KWC4, Thermobacillus composti str. KWC4, Thermobacillus composti strain KWC4, Thermobacillus sp. KWC4

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
AGA56491.1	AGA59173.1	Theco_0246	Theco_3117	PFAM: Uncharacterised protein family (UPF0236).	PFAM: RAMP superfamily; TIGRFAM: CRISPR-associated protein.	0.450
AGA56491.1	AGA59175.1	Theco_0246	Theco_3119	PFAM: Uncharacterised protein family (UPF0236).	Putative RAMP superfamily protein probably involved in DNA repair; PFAM: RAMP superfamily.	0.422
AGA56491.1	AGA59178.1	Theco_0246	Theco_3122	PFAM: Uncharacterised protein family (UPF0236).	PFAM: CRISPR-associated protein (Cas_Cas02710); TIGRFAM: CRISPR-associated protein, TIGR02710 family.	0.738
AGA56799.1	AGA59173.1	Theco_0589	Theco_3117	PFAM: Uncharacterised protein family (UPF0236).	PFAM: RAMP superfamily; TIGRFAM: CRISPR-associated protein.	0.450
AGA56799.1	AGA59175.1	Theco_0589	Theco_3119	PFAM: Uncharacterised protein family (UPF0236).	Putative RAMP superfamily protein probably involved in DNA repair; PFAM: RAMP superfamily.	0.422
AGA56799.1	AGA59178.1	Theco_0589	Theco_3122	PFAM: Uncharacterised protein family (UPF0236).	PFAM: CRISPR-associated protein (Cas_Cas02710); TIGRFAM: CRISPR-associated protein, TIGR02710 family.	0.738
AGA57672.1	AGA59173.1	Theco_1524	Theco_3117	PFAM: Uncharacterised protein family (UPF0236).	PFAM: RAMP superfamily; TIGRFAM: CRISPR-associated protein.	0.453
AGA57672.1	AGA59175.1	Theco_1524	Theco_3119	PFAM: Uncharacterised protein family (UPF0236).	Putative RAMP superfamily protein probably involved in DNA repair; PFAM: RAMP superfamily.	0.423
AGA57672.1	AGA59178.1	Theco_1524	Theco_3122	PFAM: Uncharacterised protein family (UPF0236).	PFAM: CRISPR-associated protein (Cas_Cas02710); TIGRFAM: CRISPR-associated protein, TIGR02710 family.	0.738
AGA58655.1	AGA59173.1	Theco_2557	Theco_3117	PFAM: Uncharacterised protein family (UPF0236).	PFAM: RAMP superfamily; TIGRFAM: CRISPR-associated protein.	0.449
AGA58655.1	AGA59175.1	Theco_2557	Theco_3119	PFAM: Uncharacterised protein family (UPF0236).	Putative RAMP superfamily protein probably involved in DNA repair; PFAM: RAMP superfamily.	0.422
AGA58655.1	AGA59178.1	Theco_2557	Theco_3122	PFAM: Uncharacterised protein family (UPF0236).	PFAM: CRISPR-associated protein (Cas_Cas02710); TIGRFAM: CRISPR-associated protein, TIGR02710 family.	0.737
AGA58718.1	AGA59173.1	Theco_2624	Theco_3117	PFAM: Uncharacterised protein family (UPF0236).	PFAM: RAMP superfamily; TIGRFAM: CRISPR-associated protein.	0.453
AGA58718.1	AGA59175.1	Theco_2624	Theco_3119	PFAM: Uncharacterised protein family (UPF0236).	Putative RAMP superfamily protein probably involved in DNA repair; PFAM: RAMP superfamily.	0.423
AGA58718.1	AGA59178.1	Theco_2624	Theco_3122	PFAM: Uncharacterised protein family (UPF0236).	PFAM: CRISPR-associated protein (Cas_Cas02710); TIGRFAM: CRISPR-associated protein, TIGR02710 family.	0.738
AGA59173.1	AGA56491.1	Theco_3117	Theco_0246	PFAM: RAMP superfamily; TIGRFAM: CRISPR-associated protein.	PFAM: Uncharacterised protein family (UPF0236).	0.450
AGA59173.1	AGA56799.1	Theco_3117	Theco_0589	PFAM: RAMP superfamily; TIGRFAM: CRISPR-associated protein.	PFAM: Uncharacterised protein family (UPF0236).	0.450
AGA59173.1	AGA57672.1	Theco_3117	Theco_1524	PFAM: RAMP superfamily; TIGRFAM: CRISPR-associated protein.	PFAM: Uncharacterised protein family (UPF0236).	0.453
AGA59173.1	AGA58655.1	Theco_3117	Theco_2557	PFAM: RAMP superfamily; TIGRFAM: CRISPR-associated protein.	PFAM: Uncharacterised protein family (UPF0236).	0.449
AGA59173.1	AGA58718.1	Theco_3117	Theco_2624	PFAM: RAMP superfamily; TIGRFAM: CRISPR-associated protein.	PFAM: Uncharacterised protein family (UPF0236).	0.453

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

45

average node degree:

8.18

avg. local clustering coefficient:

0.962

expected number of edges:

11

PPI enrichment p-value:

4.5e-14

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:0110156

Methylguanosine-cap decapping

4 of 5

2.76

3.84

6.96e-08

GO:0033962

P-body assembly

4 of 6

2.68

3.72

1.06e-07

GO:0000956

Nuclear-transcribed mRNA catabolic process

7 of 63

1.9

3.52

3.03e-09

GO:0000290

Deadenylation-dependent decapping of nuclear-transcribed mRNA

3 of 4

2.73

9.13e-06

GO:0016071

mRNA metabolic process

9 of 253

1.41

2.27

3.03e-09

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0004534

5-3 exoribonuclease activity

2 of 3

2.68

1.19

0.0070

GO:0003723

RNA binding

8 of 475

1.08

1.13

3.07e-05

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0000932

P-body

7 of 17

2.47

6.19

2.23e-13

GO:1990726

Lsm1-7-Pat1 complex

3 of 6

2.55

2.46

2.52e-05

GO:0010494

Cytoplasmic stress granule

3 of 10

2.33

2.18

7.12e-05

GO:0120114

Sm-like protein family complex

4 of 49

1.77

1.88

7.12e-05

GO:0005688

U6 snRNP

2 of 5

2.46

1.33

0.0035

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:5431

mRNA decay by 5 to 3 exoribonuclease, and Tristetraprolin (TTP, ZFP36) binds and destabilizes mRNA

7 of 18

2.45

6.02

4.52e-13

CL:5434

mRNA decay by 5 to 3 exoribonuclease

6 of 13

2.52

5.4

2.02e-11

CL:5437

Spliceosome

3 of 5

2.63

2.37

4.09e-05

CL:5450

Methylguanosine-cap decapping, and FDF domain

2 of 5

2.46

1.09

0.0101

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03018

RNA degradation

9 of 85

1.88

4.79

2.36e-14

map03040

Spliceosome

3 of 131

1.22

0.58

0.0484

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-430039

mRNA decay by 5 to 3 exoribonuclease

7 of 13

2.59

6.64

5.94e-14

MAP-429914

Deadenylation-dependent mRNA decay

7 of 41

2.09

4.59

2.78e-11

MAP-8953854

Metabolism of RNA

9 of 501

1.11

1.37

2.63e-07

MAP-450385

Butyrate Response Factor 1 (BRF1) binds and destabilizes mRNA

2 of 4

2.55

1.22

0.0059

MAP-450513

Tristetraprolin (TTP, ZFP36) binds and destabilizes mRNA

2 of 7

2.31

1.06

0.0112

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0000932

P-body

4 of 9

2.5

3.1

1.28e-06

GOCC:0005688

U6 snRNP

3 of 7

2.49

2.28

5.29e-05

GOCC:0044853

Plasma membrane raft

2 of 3

2.68

1.49

0.0019

GOCC:0032126

Eisosome

2 of 3

2.68

1.49

0.0019

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0507

mRNA processing

3 of 15

2.16

1.79

0.00035

KW-0747

Spliceosome

2 of 7

2.31

1.26

0.0046

KW-0694

RNA-binding

4 of 129

1.35

1.05

0.0025

KW-0687

Ribonucleoprotein

3 of 74

1.46

0.98

0.0063

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF03159

XRN 5-3 exonuclease N-terminus

2 of 3

2.68

1.02

0.0139

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR001163

Sm domain, eukaryotic/archaea-type

3 of 15

2.16

1.28

0.0038

IPR047575

Sm domain

3 of 17

2.1

1.27

0.0038

IPR010920

LSM domain superfamily

3 of 19

2.05

1.26

0.0038

IPR027073

5-3 exoribonuclease

2 of 3

2.68

1.1

0.0102

IPR004859

Xrn1, N-terminal

2 of 3

2.68

1.1

0.0102

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00651

snRNP Sm proteins

3 of 15

2.16

1.72

0.00049

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (30%) [HD]

Permalink

Network

Neighborhood

Experiments

Cooccurrence

Textmining

Coexpression

Databases

Fusion

© STRING Consortium 2024

Credits

Access

Info

About