AMK13387.1 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

AMK13387.1

arginyl-tRNA synthetase ArgS. (586 aa)

Predicted Functional Partners:

AMK13653.1

0.997

AMK14080.1

0.995

AMK13868.1

0.992

AMK13600.1

0.991

AMK13970.1

0.987

AMK14471.1

0.980

AMK13779.1

0.970

AMK13330.1

0.963

AMK14285.1

0.915

AMK13370.1

0.904

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
AMK13330.1	AMK13370.1	AUP07_0273	AUP07_0314	aspartyl-tRNA synthetase AspS.	Ribosomal protein L18P Rpl18p.	0.798
AMK13330.1	AMK13387.1	AUP07_0273	AUP07_0331	aspartyl-tRNA synthetase AspS.	arginyl-tRNA synthetase ArgS.	0.963
AMK13330.1	AMK13600.1	AUP07_0273	AUP07_0546	aspartyl-tRNA synthetase AspS.	valyl-tRNA ligase ValS.	0.946
AMK13330.1	AMK13653.1	AUP07_0273	AUP07_0601	aspartyl-tRNA synthetase AspS.	isoleucyl-tRNA synthetase IleS.	0.965
AMK13330.1	AMK13868.1	AUP07_0273	AUP07_0821	aspartyl-tRNA synthetase AspS.	leucyl-tRNA synthetase LeuS.	0.967
AMK13330.1	AMK13970.1	AUP07_0273	AUP07_0923	aspartyl-tRNA synthetase AspS.	glutamyl-tRNA synthetase GltX.	0.952
AMK13330.1	AMK14080.1	AUP07_0273	AUP07_1038	aspartyl-tRNA synthetase AspS.	methionyl-tRNA synthetase MetG.	0.980
AMK13330.1	AMK14285.1	AUP07_0273	AUP07_1248	aspartyl-tRNA synthetase AspS.	Ribosomal protein S7P Rps7p.	0.411
AMK13330.1	AMK14471.1	AUP07_0273	AUP07_1435	aspartyl-tRNA synthetase AspS.	prolyl-tRNA synthetase ProS.	0.936
AMK13370.1	AMK13330.1	AUP07_0314	AUP07_0273	Ribosomal protein L18P Rpl18p.	aspartyl-tRNA synthetase AspS.	0.798
AMK13370.1	AMK13387.1	AUP07_0314	AUP07_0331	Ribosomal protein L18P Rpl18p.	arginyl-tRNA synthetase ArgS.	0.904
AMK13370.1	AMK13600.1	AUP07_0314	AUP07_0546	Ribosomal protein L18P Rpl18p.	valyl-tRNA ligase ValS.	0.887
AMK13370.1	AMK13653.1	AUP07_0314	AUP07_0601	Ribosomal protein L18P Rpl18p.	isoleucyl-tRNA synthetase IleS.	0.876
AMK13370.1	AMK13779.1	AUP07_0314	AUP07_0730	Ribosomal protein L18P Rpl18p.	aspartyl-tRNA synthetase AspS.	0.798
AMK13370.1	AMK13868.1	AUP07_0314	AUP07_0821	Ribosomal protein L18P Rpl18p.	leucyl-tRNA synthetase LeuS.	0.942
AMK13370.1	AMK13970.1	AUP07_0314	AUP07_0923	Ribosomal protein L18P Rpl18p.	glutamyl-tRNA synthetase GltX.	0.971
AMK13370.1	AMK14080.1	AUP07_0314	AUP07_1038	Ribosomal protein L18P Rpl18p.	methionyl-tRNA synthetase MetG.	0.798
AMK13370.1	AMK14285.1	AUP07_0314	AUP07_1248	Ribosomal protein L18P Rpl18p.	Ribosomal protein S7P Rps7p.	0.999
AMK13370.1	AMK14471.1	AUP07_0314	AUP07_1435	Ribosomal protein L18P Rpl18p.	prolyl-tRNA synthetase ProS.	0.971
AMK13387.1	AMK13330.1	AUP07_0331	AUP07_0273	arginyl-tRNA synthetase ArgS.	aspartyl-tRNA synthetase AspS.	0.963

page 1 of 6

Network Stats

number of nodes:

11

number of edges:

28

average node degree:

5.09

avg. local clustering coefficient:

0.836

expected number of edges:

30

PPI enrichment p-value:

0.64

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:0001678

Cellular glucose homeostasis

6 of 14

2.86

6.28

1.41e-12

GO:0006096

Glycolytic process

6 of 41

2.39

5.01

6.48e-11

GO:0019318

Hexose metabolic process

6 of 85

2.08

3.97

1.41e-09

GO:0006006

Glucose metabolic process

4 of 46

2.17

2.84

1.85e-06

GO:0042128

Nitrate assimilation

3 of 17

2.47

2.52

1.80e-05

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0008865

Fructokinase activity

6 of 8

3.1

7.15

5.67e-14

GO:0005536

Glucose binding

6 of 8

3.1

7.15

5.67e-14

GO:0004340

Glucokinase activity

6 of 8

3.1

7.15

5.67e-14

GO:0050464

Nitrate reductase (NADPH) activity

3 of 4

3.1

3.19

1.58e-06

GO:0043546

Molybdopterin cofactor binding

3 of 10

2.71

2.74

8.61e-06

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005739

Mitochondrion

7 of 1638

0.86

0.58

0.0102

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:21208

Nitrate reductase (NADPH) activity

3 of 5

3.01

2.77

9.06e-06

CL:22918

Mixed, incl. Hexokinase, and Transaldolase type 1

3 of 7

2.86

2.64

1.46e-05

CL:22838

Mixed, incl. Pentose phosphate pathway, and Glycolysis

6 of 159

1.8

2.63

6.25e-07

CL:23117

Mixed, incl. N-acetylglucosamine catabolic process, and UDP-N-acetylglucosamine metabolic process

3 of 17

2.47

2.19

7.87e-05

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00052

Galactose metabolism

6 of 90

2.05

3.96

1.14e-09

map00051

Fructose and mannose metabolism

6 of 122

1.92

3.55

3.30e-09

map00010

Glycolysis / Gluconeogenesis

6 of 157

1.81

3.18

9.54e-09

map00520

Amino sugar and nucleotide sugar metabolism

6 of 211

1.68

2.74

4.03e-08

map00500

Starch and sucrose metabolism

6 of 225

1.65

2.67

4.69e-08

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-170822

Regulation of Glucokinase by Glucokinase Regulatory Protein

6 of 7

3.16

7.5

1.38e-14

MAP-70171

Glycolysis

6 of 44

2.36

4.97

6.32e-11

MAP-70326

Glucose metabolism

6 of 188

1.73

2.67

1.76e-07

MAP-71387

Metabolism of carbohydrates

6 of 399

1.41

1.69

1.08e-05

MAP-6798695

Neutrophil degranulation

6 of 559

1.26

1.33

6.20e-05

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0324

Glycolysis

6 of 23

2.64

6.14

1.07e-12

KW-0418

Kinase

6 of 156

1.81

3.07

2.50e-08

KW-0534

Nitrate assimilation

2 of 6

2.75

1.85

0.00042

KW-0500

Molybdenum

2 of 6

2.75

1.85

0.00042

KW-0067

ATP-binding

6 of 549

1.27

1.41

2.63e-05

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF03727

Hexokinase

6 of 7

3.16

7.27

3.81e-14

PF00349

Hexokinase

6 of 7

3.16

7.27

3.81e-14

PF03404

Mo-co oxidoreductase dimerisation domain

3 of 8

2.8

2.52

2.34e-05

PF00174

Oxidoreductase molybdopterin binding domain

3 of 8

2.8

2.52

2.34e-05

PF00970

Oxidoreductase FAD-binding domain

3 of 13

2.59

2.33

4.75e-05

(more ...)

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR022673

Hexokinase, C-terminal

6 of 7

3.16

7.04

1.02e-13

IPR022672

Hexokinase, N-terminal

6 of 7

3.16

7.04

1.02e-13

IPR001312

Hexokinase

6 of 7

3.16

7.04

1.02e-13

IPR043129

ATPase, nucleotide binding domain

6 of 64

2.2

4.12

1.93e-09

IPR019807

Hexokinase, binding site

3 of 4

3.1

2.81

8.00e-06

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM01117

Cytochrome b5-like Heme/Steroid binding domain

3 of 41

2.09

1.53

0.0011

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (30%) [HD]

Permalink

Network

Neighborhood

Experiments

Fusion

Databases

Cooccurrence

Textmining

Coexpression

© STRING Consortium 2024

Credits

Access

Info

About