glnM_1 protein (Lactobacillus sunkii) - 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

glnM_1

Putative glutamine ABC transporter permease protein GlnM. (212 aa)

Predicted Functional Partners:

glnH_1

0.997

glnQ_1

0.996

glnP_1

0.995

artM_1

0.988

artM_3

0.987

tcyN

0.984

artM_2

0.984

glnQ_2

0.951

fliY

0.951

glnH_2

0.934

Your Current Organism:

Lactobacillus sunkii

NCBI taxonomy Id: 481719
Other names: DSM 19904, JCM 15039, L. sunkii, Lactobacillus sp. YIT 11161, Lactobacillus sp. YIT 11442, Lactobacillus sp. YIT 11539, Lactobacillus sp. YIT 11549, Lactobacillus sp. YIT 11557, Lactobacillus sp. YIT 11635, Lactobacillus sunkii Watanabe et al. 2009, NRIC 0744, YIT 11161

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
artM_1	fliY	LASUN_10710	LASUN_12050	Arginine transport ATP-binding protein ArtM.	Cystine-binding periplasmic protein precursor.	0.871
artM_1	glnH_1	LASUN_10710	LASUN_09240	Arginine transport ATP-binding protein ArtM.	ABC transporter glutamine-binding protein GlnH precursor.	0.854
artM_1	glnH_2	LASUN_10710	LASUN_19340	Arginine transport ATP-binding protein ArtM.	ABC transporter glutamine-binding protein GlnH precursor.	0.770
artM_1	glnM_1	LASUN_10710	LASUN_09230	Arginine transport ATP-binding protein ArtM.	Putative glutamine ABC transporter permease protein GlnM.	0.988
artM_1	glnP_1	LASUN_10710	LASUN_09220	Arginine transport ATP-binding protein ArtM.	Putative glutamine ABC transporter permease protein GlnP.	0.991
artM_2	fliY	LASUN_19350	LASUN_12050	Arginine transport ATP-binding protein ArtM.	Cystine-binding periplasmic protein precursor.	0.819
artM_2	glnH_1	LASUN_19350	LASUN_09240	Arginine transport ATP-binding protein ArtM.	ABC transporter glutamine-binding protein GlnH precursor.	0.848
artM_2	glnH_2	LASUN_19350	LASUN_19340	Arginine transport ATP-binding protein ArtM.	ABC transporter glutamine-binding protein GlnH precursor.	0.984
artM_2	glnM_1	LASUN_19350	LASUN_09230	Arginine transport ATP-binding protein ArtM.	Putative glutamine ABC transporter permease protein GlnM.	0.984
artM_2	glnP_1	LASUN_19350	LASUN_09220	Arginine transport ATP-binding protein ArtM.	Putative glutamine ABC transporter permease protein GlnP.	0.989
artM_3	fliY	LASUN_24900	LASUN_12050	Arginine transport ATP-binding protein ArtM.	Cystine-binding periplasmic protein precursor.	0.871
artM_3	glnH_1	LASUN_24900	LASUN_09240	Arginine transport ATP-binding protein ArtM.	ABC transporter glutamine-binding protein GlnH precursor.	0.873
artM_3	glnH_2	LASUN_24900	LASUN_19340	Arginine transport ATP-binding protein ArtM.	ABC transporter glutamine-binding protein GlnH precursor.	0.798
artM_3	glnM_1	LASUN_24900	LASUN_09230	Arginine transport ATP-binding protein ArtM.	Putative glutamine ABC transporter permease protein GlnM.	0.987
artM_3	glnP_1	LASUN_24900	LASUN_09220	Arginine transport ATP-binding protein ArtM.	Putative glutamine ABC transporter permease protein GlnP.	0.991
fliY	artM_1	LASUN_12050	LASUN_10710	Cystine-binding periplasmic protein precursor.	Arginine transport ATP-binding protein ArtM.	0.871
fliY	artM_2	LASUN_12050	LASUN_19350	Cystine-binding periplasmic protein precursor.	Arginine transport ATP-binding protein ArtM.	0.819
fliY	artM_3	LASUN_12050	LASUN_24900	Cystine-binding periplasmic protein precursor.	Arginine transport ATP-binding protein ArtM.	0.871
fliY	glnH_1	LASUN_12050	LASUN_09240	Cystine-binding periplasmic protein precursor.	ABC transporter glutamine-binding protein GlnH precursor.	0.528
fliY	glnH_2	LASUN_12050	LASUN_19340	Cystine-binding periplasmic protein precursor.	ABC transporter glutamine-binding protein GlnH precursor.	0.489

page 1 of 4

Network Stats

number of nodes:

11

number of edges:

24

average node degree:

4.36

avg. local clustering coefficient:

0.804

expected number of edges:

21

PPI enrichment p-value:

0.291

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:0051568

Histone H3-K4 methylation

6 of 11

2.61

5.33

4.55e-11

GO:0031497

Chromatin assembly

5 of 69

1.73

2.2

6.49e-06

GO:0006325

Chromatin organization

7 of 185

1.45

2.06

3.55e-07

GO:0051276

Chromosome organization

8 of 310

1.28

1.73

2.94e-07

GO:0034728

Nucleosome organization

3 of 29

1.89

1.37

0.0018

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0030527

Structural constituent of chromatin

3 of 13

2.24

1.51

0.0014

GO:0046983

Protein dimerization activity

4 of 62

1.68

1.33

0.0014

GO:0046982

Protein heterodimerization activity

3 of 33

1.83

1.18

0.0045

GO:0042800

Histone methyltransferase activity (H3-K4 specific)

2 of 5

2.47

1.11

0.0093

GO:0042393

Histone binding

3 of 46

1.69

1.0

0.0093

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0048188

Set1C/COMPASS complex

6 of 8

2.75

6.05

2.65e-12

GO:0000786

Nucleosome

3 of 15

2.17

1.97

0.00015

GO:0017053

Transcription repressor complex

2 of 5

2.47

1.41

0.0025

GO:0005694

Chromosome

7 of 331

1.2

1.38

8.77e-06

GO:0032991

Protein-containing complex

11 of 1727

0.68

0.63

7.57e-06

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:230

Mixed, incl. PKMTs methylate histone lysines, and Nucleosome

10 of 61

2.09

6.44

1.90e-17

CL:233

Mixed, incl. Structural constituent of chromatin, and Set1C/COMPASS complex

8 of 37

2.21

6.01

1.65e-14

CL:289

Set1C/COMPASS complex

5 of 5

2.87

5.48

5.39e-11

CL:235

Mixed, incl. Structural constituent of chromatin, and ISWI-type complex

3 of 21

2.03

1.7

0.00043

CL:342

Transcription repressor complex, and Activation of the AP-1 family of transcription factors

2 of 5

2.47

1.32

0.0038

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-4839726

Chromatin organization

6 of 78

1.76

2.62

3.88e-07

MAP-3247509

Chromatin modifying enzymes

6 of 78

1.76

2.62

3.88e-07

MAP-2299718

Condensation of Prophase Chromosomes

3 of 8

2.45

2.16

8.96e-05

MAP-3214858

RMTs methylate histone arginines

3 of 18

2.09

1.73

0.00043

MAP-8951664

Neddylation

4 of 64

1.67

1.57

0.00031

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0035097

Histone methyltransferase complex

5 of 14

2.43

3.97

1.64e-08

GOCC:0048188

Set1C/COMPASS complex

4 of 7

2.63

3.58

1.83e-07

GOCC:0000786

Nucleosome

3 of 16

2.15

1.75

0.00041

GOCC:0032991

Protein-containing complex

9 of 2102

0.5

0.36

0.0137

GOCC:0043229

Intracellular organelle

11 of 3525

0.37

0.29

0.0100

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0158

Chromosome

4 of 17

2.24

2.83

2.45e-06

KW-0544

Nucleosome core

3 of 7

2.5

2.53

1.77e-05

KW-0853

WD repeat

5 of 102

1.56

1.86

1.77e-05

KW-0539

Nucleus

4 of 331

0.95

0.51

0.0425

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR001680

WD40 repeat

5 of 112

1.52

1.37

0.00060

IPR015943

WD40/YVTN repeat-like-containing domain superfamily

5 of 146

1.41

1.2

0.0011

IPR035425

CENP-T/Histone H4, histone fold

2 of 4

2.57

1.09

0.0105

IPR001951

Histone H4

2 of 3

2.7

1.09

0.0105

IPR009072

Histone-fold

3 of 31

1.86

1.04

0.0090

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00320

WD40 repeats

5 of 120

1.49

1.57

0.00010

SM00417

Histone H4

2 of 3

2.7

1.42

0.0026

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (18%) [HD]

Permalink

Network

Neighborhood

Experiments

Fusion

Databases

Cooccurrence

Textmining

Coexpression

© STRING Consortium 2024

Credits

Access

Info

About