AMK13114.1 protein (methanogenic archaeon mixed)

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

AMK13114.1

DNA primase small subunit. (409 aa)

Predicted Functional Partners:

AMK13105.1

0.999

AMK14369.1

0.999

AMK13195.1

0.996

AMK13770.1

0.987

AMK13178.1

0.983

AMK13074.1

0.974

AMK13846.1

0.948

AMK13343.1

0.946

AMK13990.1

0.946

AMK13649.1

0.936

Your Current Organism:

methanogenic archaeon mixed

NCBI taxonomy Id: 1452364
Other names: m. archaeon mixed culture ISO4-G1, methanogenic archaeon mixed culture ISO4-G1

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
AMK13074.1	AMK13105.1	AUP07_0014	AUP07_0045	DNA polymerase II small subunit.	DNA primase large subunit.	0.993
AMK13074.1	AMK13114.1	AUP07_0014	AUP07_0054	DNA polymerase II small subunit.	DNA primase small subunit.	0.974
AMK13074.1	AMK13178.1	AUP07_0014	AUP07_0118	DNA polymerase II small subunit.	Replication factor A.	0.944
AMK13074.1	AMK13195.1	AUP07_0014	AUP07_0135	DNA polymerase II small subunit.	DNA polymerase sliding clamp subunit PCNA family Pcn.	0.999
AMK13074.1	AMK13343.1	AUP07_0014	AUP07_0286	DNA polymerase II small subunit.	Ribonuclease HII RnhB.	0.646
AMK13074.1	AMK13649.1	AUP07_0014	AUP07_0597	DNA polymerase II small subunit.	Flap structure-specific endonuclease Fen.	0.987
AMK13074.1	AMK13770.1	AUP07_0014	AUP07_0721	DNA polymerase II small subunit.	DNA primase DnaG.	0.690
AMK13074.1	AMK13846.1	AUP07_0014	AUP07_0799	DNA polymerase II small subunit.	Replication factor C large subunit.	0.920
AMK13074.1	AMK13990.1	AUP07_0014	AUP07_0945	DNA polymerase II small subunit.	Replication factor C small subunit.	0.913
AMK13074.1	AMK14369.1	AUP07_0014	AUP07_1332	DNA polymerase II small subunit.	DNA polymerase family B.	0.999
AMK13105.1	AMK13074.1	AUP07_0045	AUP07_0014	DNA primase large subunit.	DNA polymerase II small subunit.	0.993
AMK13105.1	AMK13114.1	AUP07_0045	AUP07_0054	DNA primase large subunit.	DNA primase small subunit.	0.999
AMK13105.1	AMK13178.1	AUP07_0045	AUP07_0118	DNA primase large subunit.	Replication factor A.	0.984
AMK13105.1	AMK13195.1	AUP07_0045	AUP07_0135	DNA primase large subunit.	DNA polymerase sliding clamp subunit PCNA family Pcn.	0.999
AMK13105.1	AMK13343.1	AUP07_0045	AUP07_0286	DNA primase large subunit.	Ribonuclease HII RnhB.	0.772
AMK13105.1	AMK13649.1	AUP07_0045	AUP07_0597	DNA primase large subunit.	Flap structure-specific endonuclease Fen.	0.954
AMK13105.1	AMK13770.1	AUP07_0045	AUP07_0721	DNA primase large subunit.	DNA primase DnaG.	0.984
AMK13105.1	AMK13846.1	AUP07_0045	AUP07_0799	DNA primase large subunit.	Replication factor C large subunit.	0.946
AMK13105.1	AMK13990.1	AUP07_0045	AUP07_0945	DNA primase large subunit.	Replication factor C small subunit.	0.919
AMK13105.1	AMK14369.1	AUP07_0045	AUP07_1332	DNA primase large subunit.	DNA polymerase family B.	0.999

page 1 of 6

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

13

PPI enrichment p-value:

< 1.0e-16

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:0034654

Nucleobase-containing compound biosynthetic process

10 of 150

1.39

2.51

4.19e-12

GO:0006796

Phosphate-containing compound metabolic process

10 of 293

1.1

1.48

1.77e-09

GO:0044237

Cellular metabolic process

11 of 1599

0.4

0.34

0.00091

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0046933

Proton-transporting ATP synthase activity, rotational mechanism

9 of 10

2.52

8.24

4.91e-18

GO:0046961

Proton-transporting ATPase activity, rotational mechanism

2 of 3

2.39

1.33

0.0034

GO:0003824

Catalytic activity

11 of 2004

0.3

0.25

0.0178

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0045259

Proton-transporting ATP synthase complex

9 of 9

2.56

8.79

4.58e-19

GO:0045261

Proton-transporting ATP synthase complex, catalytic core F(1)

5 of 5

2.56

4.87

3.47e-10

GO:0045263

Proton-transporting ATP synthase complex, coupling factor F(o)

4 of 4

2.56

3.87

3.98e-08

GO:0032991

Protein-containing complex

10 of 227

1.21

1.83

1.41e-10

GO:0005886

Plasma membrane

9 of 557

0.77

0.74

1.24e-05

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:308

ATP synthesis

10 of 11

2.52

9.31

1.11e-20

CL:311

Proton-transporting ATP synthase complex, catalytic core F(1)

6 of 6

2.56

5.68

6.37e-12

CL:132

Ribosome, and ATP synthesis

11 of 99

1.61

3.76

1.67e-15

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

lmd00190

Oxidative phosphorylation

10 of 48

1.88

5.23

2.10e-16

lmd01100

Metabolic pathways

9 of 810

0.61

0.49

0.0012

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0045259

Proton-transporting ATP synthase complex

9 of 10

2.52

8.4

2.00e-18

GOCC:0045261

Proton-transporting ATP synthase complex, catalytic core F(1)

5 of 5

2.56

4.65

9.98e-10

GOCC:0045263

Proton-transporting ATP synthase complex, coupling factor F(o)

4 of 5

2.47

3.49

1.92e-07

GOCC:0032991

Protein-containing complex

10 of 545

0.83

0.86

8.33e-07

GOCC:0005622

Intracellular

11 of 1572

0.41

0.35

0.0010

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0066

ATP synthesis

9 of 9

2.56

8.71

7.31e-19

KW-0375

Hydrogen ion transport

9 of 11

2.48

8.35

1.26e-18

KW-0139

CF(1)

5 of 5

2.56

4.72

6.94e-10

KW-0138

CF(0)

4 of 4

2.56

3.77

6.35e-08

KW-1003

Cell membrane

9 of 203

1.21

1.73

4.60e-09

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF02874

ATP synthase alpha/beta family, beta-barrel domain

2 of 2

2.56

0.91

0.0224

PF00430

ATP synthase B/B CF(0)

2 of 2

2.56

0.91

0.0224

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (24%) [HD]

Permalink

Network

Neighborhood

Experiments

Cooccurrence

Databases

Coexpression

Textmining

Fusion

© STRING Consortium 2024

Credits

Access

Info

About