kpsM_2 protein (Shimia marina) - 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

kpsM_2

Polysialic acid transport protein KpsM. (256 aa)

Predicted Functional Partners:

kpsT_2

0.999

kpsT_3

0.997

CUH52131.1

0.991

CUH52132.1

0.978

CUH51504.1

0.970

CUH52138.1

0.967

CUH54345.1

0.963

CUH52139.1

0.931

CUH53251.1

0.922

CUH52134.1

0.909

Your Current Organism:

Shimia marina

NCBI taxonomy Id: 321267
Other names: CECT 7688, DSM 26895, JCM 13038, KCCM 42117, Rhodobacteraceae bacterium CL-TA03, S. marina, Shimia marina Choi and Cho 2006, strain CL-TA03

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
CUH51504.1	CUH52132.1	SHM7688_00941	SHM7688_01572	Vi polysaccharide export inner membrane protein VexD.	Capsule polysaccharide biosynthesis protein.	0.916
CUH51504.1	CUH52138.1	SHM7688_00941	SHM7688_01578	Vi polysaccharide export inner membrane protein VexD.	Polysaccharide export protein Wza.	0.855
CUH51504.1	CUH52139.1	SHM7688_00941	SHM7688_01579	Vi polysaccharide export inner membrane protein VexD.	Capsule polysaccharide biosynthesis protein.	0.807
CUH51504.1	CUH53251.1	SHM7688_00941	SHM7688_02704	Vi polysaccharide export inner membrane protein VexD.	Capsule polysaccharide biosynthesis protein.	0.913
CUH51504.1	CUH54345.1	SHM7688_00941	SHM7688_03815	Vi polysaccharide export inner membrane protein VexD.	Vi polysaccharide export inner membrane protein VexD.	0.746
CUH51504.1	kpsM_2	SHM7688_00941	SHM7688_01570	Vi polysaccharide export inner membrane protein VexD.	Polysialic acid transport protein KpsM.	0.970
CUH51504.1	kpsT_2	SHM7688_00941	SHM7688_01569	Vi polysaccharide export inner membrane protein VexD.	Polysialic acid transport ATP-binding protein KpsT.	0.970
CUH51504.1	kpsT_3	SHM7688_00941	SHM7688_03816	Vi polysaccharide export inner membrane protein VexD.	Polysialic acid transport ATP-binding protein KpsT.	0.970
CUH52131.1	CUH52132.1	SHM7688_01571	SHM7688_01572	Vi polysaccharide export inner membrane protein VexD.	Capsule polysaccharide biosynthesis protein.	0.981
CUH52131.1	CUH52134.1	SHM7688_01571	SHM7688_01574	Vi polysaccharide export inner membrane protein VexD.	HAD hydrolase.	0.867
CUH52131.1	CUH52138.1	SHM7688_01571	SHM7688_01578	Vi polysaccharide export inner membrane protein VexD.	Polysaccharide export protein Wza.	0.975
CUH52131.1	CUH52139.1	SHM7688_01571	SHM7688_01579	Vi polysaccharide export inner membrane protein VexD.	Capsule polysaccharide biosynthesis protein.	0.951
CUH52131.1	CUH53251.1	SHM7688_01571	SHM7688_02704	Vi polysaccharide export inner membrane protein VexD.	Capsule polysaccharide biosynthesis protein.	0.920
CUH52131.1	CUH54345.1	SHM7688_01571	SHM7688_03815	Vi polysaccharide export inner membrane protein VexD.	Vi polysaccharide export inner membrane protein VexD.	0.753
CUH52131.1	kpsM_2	SHM7688_01571	SHM7688_01570	Vi polysaccharide export inner membrane protein VexD.	Polysialic acid transport protein KpsM.	0.991
CUH52131.1	kpsT_2	SHM7688_01571	SHM7688_01569	Vi polysaccharide export inner membrane protein VexD.	Polysialic acid transport ATP-binding protein KpsT.	0.991
CUH52131.1	kpsT_3	SHM7688_01571	SHM7688_03816	Vi polysaccharide export inner membrane protein VexD.	Polysialic acid transport ATP-binding protein KpsT.	0.971
CUH52132.1	CUH51504.1	SHM7688_01572	SHM7688_00941	Capsule polysaccharide biosynthesis protein.	Vi polysaccharide export inner membrane protein VexD.	0.916
CUH52132.1	CUH52131.1	SHM7688_01572	SHM7688_01571	Capsule polysaccharide biosynthesis protein.	Vi polysaccharide export inner membrane protein VexD.	0.981
CUH52132.1	CUH52134.1	SHM7688_01572	SHM7688_01574	Capsule polysaccharide biosynthesis protein.	HAD hydrolase.	0.856

page 1 of 5

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

17

PPI enrichment p-value:

4.2e-13

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:0044205

De novo UMP biosynthetic process

6 of 6

1.98

3.2

7.78e-08

GO:0006207

De novo pyrimidine nucleobase biosynthetic process

5 of 5

1.98

2.96

3.44e-07

GO:0046112

Nucleobase biosynthetic process

6 of 9

1.81

2.91

7.78e-08

GO:0006221

Pyrimidine nucleotide biosynthetic process

7 of 14

1.68

2.67

7.78e-08

GO:0009156

Ribonucleoside monophosphate biosynthetic process

7 of 27

1.4

1.99

2.15e-07

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:769

De novo UMP biosynthetic process

5 of 5

1.98

2.94

3.78e-07

CL:738

Ribonucleoside monophosphate biosynthetic process

8 of 22

1.54

2.61

5.05e-09

CL:735

Ribonucleoside monophosphate biosynthetic process, and Glutamine family amino acid metabolic process

9 of 42

1.32

2.0

5.05e-09

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00240

Pyrimidine metabolism

8 of 21

1.57

2.76

1.40e-09

map00250

Alanine, aspartate and glutamate metabolism

5 of 19

1.4

1.51

6.76e-05

map01100

Metabolic pathways

10 of 344

0.45

0.36

0.0032

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0665

Pyrimidine biosynthesis

4 of 5

1.89

1.96

7.62e-05

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (28%) [HD]

Permalink

Network

Neighborhood

Experiments

Fusion

Databases

Cooccurrence

Textmining

Coexpression

© STRING Consortium 2024

Credits

Access

Info

About