SPO0184 protein (Ruegeria pomeroyi) - 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

SPO0184

Membrane protein, putative; Identified by match to protein family HMM PF01970. (505 aa)

Predicted Functional Partners:

SPO0185

0.969

SPO0186

0.924

SPO2382

0.863

SPO1073

0.856

SPO0769

0.674

SPO0188

0.609

SPO0189

0.484

SPO0187

0.457

Your Current Organism:

Ruegeria pomeroyi

NCBI taxonomy Id: 246200
Other names: R. pomeroyi DSS-3, Ruegeria pomeroyi DSS-3, Ruegeria pomeroyi str. DSS-3, Ruegeria pomeroyi strain DSS-3, Silicibacter pomeroyi DSS-3

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 annotation	node2 annotation	score
SPO0184	SPO0185	Membrane protein, putative; Identified by match to protein family HMM PF01970.	Membrane protein, putative.	0.969
SPO0184	SPO0186	Membrane protein, putative; Identified by match to protein family HMM PF01970.	Bordetella uptake gene family protein; Identified by match to protein family HMM PF03401.	0.924
SPO0184	SPO0187	Membrane protein, putative; Identified by match to protein family HMM PF01970.	DNA-binding response regulator; Identified by match to protein family HMM PF00072; match to protein family HMM PF00486.	0.457
SPO0184	SPO0188	Membrane protein, putative; Identified by match to protein family HMM PF01970.	Sensor histidine kinase; Identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518.	0.609
SPO0184	SPO0189	Membrane protein, putative; Identified by match to protein family HMM PF01970.	Hypothetical protein; Identified by similarity to GB:AAM42620.1.	0.484
SPO0184	SPO0769	Membrane protein, putative; Identified by match to protein family HMM PF01970.	Identified by match to protein family HMM PF03401.	0.674
SPO0184	SPO1073	Membrane protein, putative; Identified by match to protein family HMM PF01970.	Bordetella uptake gene family protein; Identified by match to protein family HMM PF03401.	0.856
SPO0184	SPO2382	Membrane protein, putative; Identified by match to protein family HMM PF01970.	Identified by similarity to GB:CAE42344.1; match to protein family HMM PF03401.	0.863
SPO0185	SPO0184	Membrane protein, putative.	Membrane protein, putative; Identified by match to protein family HMM PF01970.	0.969
SPO0185	SPO0186	Membrane protein, putative.	Bordetella uptake gene family protein; Identified by match to protein family HMM PF03401.	0.945
SPO0185	SPO0187	Membrane protein, putative.	DNA-binding response regulator; Identified by match to protein family HMM PF00072; match to protein family HMM PF00486.	0.757
SPO0185	SPO0188	Membrane protein, putative.	Sensor histidine kinase; Identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518.	0.852
SPO0185	SPO0189	Membrane protein, putative.	Hypothetical protein; Identified by similarity to GB:AAM42620.1.	0.809
SPO0185	SPO0769	Membrane protein, putative.	Identified by match to protein family HMM PF03401.	0.594
SPO0185	SPO1073	Membrane protein, putative.	Bordetella uptake gene family protein; Identified by match to protein family HMM PF03401.	0.594
SPO0185	SPO2382	Membrane protein, putative.	Identified by similarity to GB:CAE42344.1; match to protein family HMM PF03401.	0.594
SPO0186	SPO0184	Bordetella uptake gene family protein; Identified by match to protein family HMM PF03401.	Membrane protein, putative; Identified by match to protein family HMM PF01970.	0.924
SPO0186	SPO0185	Bordetella uptake gene family protein; Identified by match to protein family HMM PF03401.	Membrane protein, putative.	0.945
SPO0186	SPO0187	Bordetella uptake gene family protein; Identified by match to protein family HMM PF03401.	DNA-binding response regulator; Identified by match to protein family HMM PF00072; match to protein family HMM PF00486.	0.685
SPO0186	SPO0188	Bordetella uptake gene family protein; Identified by match to protein family HMM PF03401.	Sensor histidine kinase; Identified by match to protein family HMM PF00512; match to protein family HMM PF00672; match to protein family HMM PF02518.	0.841

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

35

average node degree:

6.36

avg. local clustering coefficient:

0.852

expected number of edges:

24

PPI enrichment p-value:

0.0189

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:0006260

DNA replication

4 of 38

1.26

0.89

0.0056

GO:0090304

Nucleic acid metabolic process

10 of 248

0.84

0.82

1.68e-05

GO:0006259

DNA metabolic process

6 of 128

0.9

0.67

0.0044

GO:0009059

Macromolecule biosynthetic process

6 of 166

0.79

0.53

0.0123

GO:0044260

Cellular macromolecule metabolic process

8 of 295

0.67

0.49

0.0044

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0140640

Catalytic activity, acting on a nucleic acid

9 of 154

1.0

1.08

4.70e-06

GO:0016779

Nucleotidyltransferase activity

4 of 31

1.34

1.06

0.0023

GO:0003677

DNA binding

9 of 185

0.92

0.94

1.13e-05

GO:0003697

Single-stranded DNA binding

2 of 4

1.93

0.85

0.0238

GO:0140097

Catalytic activity, acting on DNA

5 of 73

1.07

0.83

0.0027

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0061695

Transferase complex, transferring phosphorus-containing groups

3 of 10

1.71

1.19

0.0034

GO:0000428

DNA-directed RNA polymerase complex

2 of 5

1.84

0.96

0.0133

GO:0140535

Intracellular protein-containing complex

3 of 20

1.41

0.95

0.0068

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:556

Mixed, incl. DNA replication, and Nucleotide excision repair

5 of 29

1.47

1.44

0.00024

CL:551

Mixed, incl. Catalytic activity, acting on DNA, and DNA replication

6 of 68

1.18

1.13

0.00024

CL:323

tRNA aminoacylation

3 of 15

1.53

0.95

0.0094

CL:558

Mixed, incl. Nucleotide excision repair, and Mre11 nuclease, N-terminal metallophosphatase domain

3 of 18

1.46

0.87

0.0126

CL:215

RNA polymerase

2 of 5

1.84

0.77

0.0328

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03030

DNA replication

4 of 22

1.49

1.3

0.00083

map03440

Homologous recombination

4 of 31

1.34

1.12

0.0014

map03020

RNA polymerase

2 of 4

1.93

0.96

0.0146

map03430

Mismatch repair

3 of 27

1.28

0.78

0.0146

map03410

Base excision repair

2 of 10

1.53

0.7

0.0377

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0548

Nucleotidyltransferase

4 of 21

1.51

1.27

0.0011

KW-0235

DNA replication

3 of 14

1.56

1.02

0.0065

KW-0240

DNA-directed RNA polymerase

2 of 5

1.84

0.92

0.0163

KW-0239

DNA-directed DNA polymerase

2 of 5

1.84

0.92

0.0163

KW-0234

DNA repair

3 of 23

1.35

0.82

0.0136

(more ...)

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 2025

Credits

Access

Info

About