SDD58439.1 protein (Peptococcus niger) - 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

SDD58439.1

S-layer homology domain-containing protein. (764 aa)

Predicted Functional Partners:

SDD66772.1

0.858

SDD66808.1

0.858

SDD40310.1

0.819

SDD23226.1

0.812

SDD28055.1

0.773

SDD83929.1

0.772

SDE07981.1

0.772

SDE08169.1

0.772

SDE08283.1

0.772

SDD84087.1

0.771

Your Current Organism:

Peptococcus niger

NCBI taxonomy Id: 2741
Other names: ATCC 27731, DSM 20475, JCM 6506, Micrococcus niger, NCTC 11805, P. niger, VPI 7953

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
SDD23226.1	SDD28055.1	SAMN04489866_10235	SAMN04489866_102142	Polysaccharide pyruvyl transferase CsaB.	Copper amine oxidase N-terminal domain-containing protein.	0.772
SDD23226.1	SDD40310.1	SAMN04489866_10235	SAMN04489866_10348	Polysaccharide pyruvyl transferase CsaB.	Copper amine oxidase N-terminal domain-containing protein.	0.772
SDD23226.1	SDD58439.1	SAMN04489866_10235	SAMN04489866_104173	Polysaccharide pyruvyl transferase CsaB.	S-layer homology domain-containing protein.	0.812
SDD23226.1	SDD83929.1	SAMN04489866_10235	SAMN04489866_10846	Polysaccharide pyruvyl transferase CsaB.	Copper amine oxidase N-terminal domain-containing protein.	0.772
SDD23226.1	SDD84087.1	SAMN04489866_10235	SAMN04489866_10850	Polysaccharide pyruvyl transferase CsaB.	Copper amine oxidase N-terminal domain-containing protein.	0.772
SDD23226.1	SDE07981.1	SAMN04489866_10235	SAMN04489866_11710	Polysaccharide pyruvyl transferase CsaB.	Copper amine oxidase N-terminal domain-containing protein.	0.772
SDD23226.1	SDE08169.1	SAMN04489866_10235	SAMN04489866_11715	Polysaccharide pyruvyl transferase CsaB.	Copper amine oxidase N-terminal domain-containing protein.	0.772
SDD23226.1	SDE08283.1	SAMN04489866_10235	SAMN04489866_11718	Polysaccharide pyruvyl transferase CsaB.	Copper amine oxidase N-terminal domain-containing protein.	0.772
SDD28055.1	SDD23226.1	SAMN04489866_102142	SAMN04489866_10235	Copper amine oxidase N-terminal domain-containing protein.	Polysaccharide pyruvyl transferase CsaB.	0.772
SDD28055.1	SDD58439.1	SAMN04489866_102142	SAMN04489866_104173	Copper amine oxidase N-terminal domain-containing protein.	S-layer homology domain-containing protein.	0.773
SDD40310.1	SDD23226.1	SAMN04489866_10348	SAMN04489866_10235	Copper amine oxidase N-terminal domain-containing protein.	Polysaccharide pyruvyl transferase CsaB.	0.772
SDD40310.1	SDD58439.1	SAMN04489866_10348	SAMN04489866_104173	Copper amine oxidase N-terminal domain-containing protein.	S-layer homology domain-containing protein.	0.819
SDD58439.1	SDD23226.1	SAMN04489866_104173	SAMN04489866_10235	S-layer homology domain-containing protein.	Polysaccharide pyruvyl transferase CsaB.	0.812
SDD58439.1	SDD28055.1	SAMN04489866_104173	SAMN04489866_102142	S-layer homology domain-containing protein.	Copper amine oxidase N-terminal domain-containing protein.	0.773
SDD58439.1	SDD40310.1	SAMN04489866_104173	SAMN04489866_10348	S-layer homology domain-containing protein.	Copper amine oxidase N-terminal domain-containing protein.	0.819
SDD58439.1	SDD66772.1	SAMN04489866_104173	SAMN04489866_10584	S-layer homology domain-containing protein.	Amino acid transporter.	0.858
SDD58439.1	SDD66808.1	SAMN04489866_104173	SAMN04489866_10585	S-layer homology domain-containing protein.	Amino acid transporter.	0.858
SDD58439.1	SDD83929.1	SAMN04489866_104173	SAMN04489866_10846	S-layer homology domain-containing protein.	Copper amine oxidase N-terminal domain-containing protein.	0.772
SDD58439.1	SDD84087.1	SAMN04489866_104173	SAMN04489866_10850	S-layer homology domain-containing protein.	Copper amine oxidase N-terminal domain-containing protein.	0.771
SDD58439.1	SDE07981.1	SAMN04489866_104173	SAMN04489866_11710	S-layer homology domain-containing protein.	Copper amine oxidase N-terminal domain-containing protein.	0.772

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

30

average node degree:

5.45

avg. local clustering coefficient:

0.819

expected number of edges:

14

PPI enrichment p-value:

0.000122

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:0006220

Pyrimidine nucleotide metabolic process

3 of 20

1.63

1.03

0.0071

GO:0006753

Nucleoside phosphate metabolic process

6 of 121

1.15

0.97

0.0013

GO:0009148

Pyrimidine nucleoside triphosphate biosynthetic process

2 of 7

1.91

0.82

0.0269

GO:0009117

Nucleotide metabolic process

5 of 118

1.08

0.8

0.0047

GO:1901292

Nucleoside phosphate catabolic process

2 of 8

1.85

0.79

0.0308

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016728

Oxidoreductase activity, acting on CH or CH2 groups, disulfide as acceptor

3 of 6

2.16

1.43

0.0019

GO:0004748

Ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor

2 of 4

2.16

0.92

0.0194

GO:0019205

Nucleobase-containing compound kinase activity

2 of 9

1.8

0.76

0.0336

GO:0016776

Phosphotransferase activity, phosphate group as acceptor

2 of 12

1.68

0.73

0.0370

GO:0000166

Nucleotide binding

8 of 492

0.67

0.47

0.0095

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005971

Ribonucleoside-diphosphate reductase complex

2 of 3

2.28

0.98

0.0158

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:836

Oxidoreductase activity, acting on CH or CH2 groups, disulfide as acceptor, and dUTPase

4 of 12

1.98

2.16

3.36e-05

CL:5199

Mixed, incl. Putative zinc- or iron-chelating domain, and Nucleoside triphosphate catabolic process

3 of 5

2.23

1.92

0.00021

CL:734

Mixed, incl. Nucleoside monophosphate biosynthetic process, and Oxidoreductase activity, acting on CH or CH2 groups, disulfide as acceptor

6 of 63

1.43

1.65

2.63e-05

CL:838

Ribonucleoside-diphosphate reductase activity

2 of 5

2.06

0.93

0.0180

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00240

Pyrimidine metabolism

8 of 48

1.68

3.29

1.14e-10

map00230

Purine metabolism

6 of 81

1.33

1.58

9.34e-06

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005971

Ribonucleoside-diphosphate reductase complex

2 of 3

2.28

0.82

0.0317

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0546

Nucleotide metabolism

2 of 6

1.98

0.77

0.0349

KW-0547

Nucleotide-binding

7 of 300

0.82

0.61

0.0041

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF02867

Ribonucleotide reductase, barrel domain

2 of 2

2.46

0.79

0.0365

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