SPO1787 protein (Ruegeria pomeroyi) - STRING interaction network

Nodes:

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splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

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query proteins and first shell of interactors

white nodes:
second shell of interactors

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proteins of unknown 3D structure

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a 3D structure is known or predicted

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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:

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[Homology]

Score

SPO1787

ABC transporter, permease protein; Identified by match to protein family HMM PF00528. (292 aa)

Predicted Functional Partners:

SPO1788

0.973

SPO1785

0.956

SPO0050

0.807

SPO3619

0.739

SPO1786

0.718

tauB

0.683

SPO0052

0.622

hydA

0.598

tauC

0.594

SPO1777

0.527

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

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SPO0050	SPO0052	SPO0050	SPO0052	ABC transporter, periplasmic substrate-binding protein; Assignment based partly on membership in ABC transporter gene cluster.	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	0.991
SPO0050	SPO1785	SPO0050	SPO1785	ABC transporter, periplasmic substrate-binding protein; Assignment based partly on membership in ABC transporter gene cluster.	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	0.489
SPO0050	SPO1786	SPO0050	SPO1786	ABC transporter, periplasmic substrate-binding protein; Assignment based partly on membership in ABC transporter gene cluster.	ABC transporter, permease protein; Identified by match to protein family HMM PF00528.	0.753
SPO0050	SPO1787	SPO0050	SPO1787	ABC transporter, periplasmic substrate-binding protein; Assignment based partly on membership in ABC transporter gene cluster.	ABC transporter, permease protein; Identified by match to protein family HMM PF00528.	0.807
SPO0050	SPO3619	SPO0050	SPO3619	ABC transporter, periplasmic substrate-binding protein; Assignment based partly on membership in ABC transporter gene cluster.	Sulfonate ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	0.550
SPO0050	tauB	SPO0050	SPO0675	ABC transporter, periplasmic substrate-binding protein; Assignment based partly on membership in ABC transporter gene cluster.	Taurine ABC transporter, ATP-binding protein; Part of the ABC transporter complex TauABC involved in taurine import. Responsible for energy coupling to the transport system; Belongs to the ABC transporter superfamily. Taurine importer (TC 3.A.1.17.1) family.	0.489
SPO0050	tauC	SPO0050	SPO0676	ABC transporter, periplasmic substrate-binding protein; Assignment based partly on membership in ABC transporter gene cluster.	Taurine ABC transporter, permease protein; Identified by similarity to SP:Q47539; PMID: 16541231.	0.574
SPO0052	SPO0050	SPO0052	SPO0050	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	ABC transporter, periplasmic substrate-binding protein; Assignment based partly on membership in ABC transporter gene cluster.	0.991
SPO0052	SPO1786	SPO0052	SPO1786	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	ABC transporter, permease protein; Identified by match to protein family HMM PF00528.	0.595
SPO0052	SPO1787	SPO0052	SPO1787	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	ABC transporter, permease protein; Identified by match to protein family HMM PF00528.	0.622
SPO0052	SPO1788	SPO0052	SPO1788	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	ABC transporter, periplasmic substrate-binding protein.	0.561
SPO0052	tauC	SPO0052	SPO0676	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	Taurine ABC transporter, permease protein; Identified by similarity to SP:Q47539; PMID: 16541231.	0.604
SPO1777	SPO1785	SPO1777	SPO1785	Identified by match to protein family HMM PF00037; match to protein family HMM PF01180; match to protein family HMM TIGR01037.	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	0.729
SPO1777	SPO1786	SPO1777	SPO1786	Identified by match to protein family HMM PF00037; match to protein family HMM PF01180; match to protein family HMM TIGR01037.	ABC transporter, permease protein; Identified by match to protein family HMM PF00528.	0.593
SPO1777	SPO1787	SPO1777	SPO1787	Identified by match to protein family HMM PF00037; match to protein family HMM PF01180; match to protein family HMM TIGR01037.	ABC transporter, permease protein; Identified by match to protein family HMM PF00528.	0.527
SPO1777	SPO1788	SPO1777	SPO1788	Identified by match to protein family HMM PF00037; match to protein family HMM PF01180; match to protein family HMM TIGR01037.	ABC transporter, periplasmic substrate-binding protein.	0.716
SPO1777	hydA	SPO1777	SPO1783	Identified by match to protein family HMM PF00037; match to protein family HMM PF01180; match to protein family HMM TIGR01037.	D-hydantoinase; Identified by match to protein family HMM PF01979; match to protein family HMM TIGR02033.	0.994
SPO1785	SPO0050	SPO1785	SPO0050	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	ABC transporter, periplasmic substrate-binding protein; Assignment based partly on membership in ABC transporter gene cluster.	0.489
SPO1785	SPO1777	SPO1785	SPO1777	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	Identified by match to protein family HMM PF00037; match to protein family HMM PF01180; match to protein family HMM TIGR01037.	0.729
SPO1785	SPO1786	SPO1785	SPO1786	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	ABC transporter, permease protein; Identified by match to protein family HMM PF00528.	0.957

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Network Stats

number of nodes:

11

number of edges:

32

average node degree:

5.82

avg. local clustering coefficient:

0.814

expected number of edges:

31

PPI enrichment p-value:

0.42

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:0009102

Biotin biosynthetic process

4 of 6

2.29

2.43

2.01e-05

GO:0072330

Monocarboxylic acid biosynthetic process

5 of 30

1.68

1.98

2.19e-05

GO:0046394

Carboxylic acid biosynthetic process

6 of 107

1.21

1.17

0.00022

GO:0044281

Small molecule metabolic process

7 of 429

0.67

0.46

0.0126

GO:0071704

Organic substance metabolic process

10 of 1181

0.39

0.28

0.0258

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:36584052

(2022) The inside scoop: Comparative genomics of two intranuclear bacteria, Candidatus Berkiella cookevillensis and Candidatus Berkiella aquae.

4 of 114

1.01

0.78

0.0028

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:1111

Biotin metabolic process

4 of 5

2.37

2.7

6.44e-06

CL:1034

Mixed, incl. Vitamin biosynthetic process, and Coenzyme A metabolic process

5 of 45

1.51

1.59

9.73e-05

CL:842

Small molecule biosynthetic process, and Nucleotide biosynthetic process

6 of 141

1.09

0.97

0.00055

CL:1311

Phosphopantetheine, and Fatty acid synthase activity

2 of 5

2.06

0.85

0.0254

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00780

Biotin metabolism

5 of 26

1.75

2.32

3.19e-06

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0093

Biotin biosynthesis

2 of 3

2.29

0.9

0.0221

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