SPO3727 protein (Ruegeria pomeroyi) - STRING interaction network

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second shell of interactors

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Known Interactions

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experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

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protein homology

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Score

SPO3727

VacJ lipoprotein, putative; Identified by similarity to SP:P43262; match to protein family HMM PF04333. (268 aa)

Predicted Functional Partners:

SPO3726

0.981

SPO1007

0.841

SPO2672

0.785

SPO2671

0.782

SPO1098

0.621

SPO2289

0.621

SPO2290

0.621

SPO3430

0.621

SPO3730

0.581

SPO3728

0.580

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 annotation	node2 annotation	score
SPO1007	SPO2671	Identified by match to protein family HMM PF02470.	Membrane protein; Identified by similarity to GB:AAD17958.1; match to protein family HMM PF02405; match to protein family HMM TIGR00056.	0.996
SPO1007	SPO2672	Identified by match to protein family HMM PF02470.	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	0.995
SPO1007	SPO3726	Identified by match to protein family HMM PF02470.	Identified by match to protein family HMM PF05494; match to protein family HMM TIGR01409.	0.989
SPO1007	SPO3727	Identified by match to protein family HMM PF02470.	VacJ lipoprotein, putative; Identified by similarity to SP:P43262; match to protein family HMM PF04333.	0.841
SPO1098	SPO3727	Hypothetical protein; Identified by similarity to GB:AAM43280.1.	VacJ lipoprotein, putative; Identified by similarity to SP:P43262; match to protein family HMM PF04333.	0.621
SPO2289	SPO2290	Hypothetical protein; Identified by similarity to PIR:E82389.	Hypothetical protein; 'Novel gene detected by proteogenomics, SPO_PG028; identified in over 20 other Roseobacter strains'.	0.495
SPO2289	SPO3727	Hypothetical protein; Identified by similarity to PIR:E82389.	VacJ lipoprotein, putative; Identified by similarity to SP:P43262; match to protein family HMM PF04333.	0.621
SPO2290	SPO2289	Hypothetical protein; 'Novel gene detected by proteogenomics, SPO_PG028; identified in over 20 other Roseobacter strains'.	Hypothetical protein; Identified by similarity to PIR:E82389.	0.495
SPO2290	SPO3430	Hypothetical protein; 'Novel gene detected by proteogenomics, SPO_PG028; identified in over 20 other Roseobacter strains'.	Outer membrane porin; Identified by similarity to GB:CAA70599.1.	0.402
SPO2290	SPO3727	Hypothetical protein; 'Novel gene detected by proteogenomics, SPO_PG028; identified in over 20 other Roseobacter strains'.	VacJ lipoprotein, putative; Identified by similarity to SP:P43262; match to protein family HMM PF04333.	0.621
SPO2671	SPO1007	Membrane protein; Identified by similarity to GB:AAD17958.1; match to protein family HMM PF02405; match to protein family HMM TIGR00056.	Identified by match to protein family HMM PF02470.	0.996
SPO2671	SPO2672	Membrane protein; Identified by similarity to GB:AAD17958.1; match to protein family HMM PF02405; match to protein family HMM TIGR00056.	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	0.999
SPO2671	SPO3726	Membrane protein; Identified by similarity to GB:AAD17958.1; match to protein family HMM PF02405; match to protein family HMM TIGR00056.	Identified by match to protein family HMM PF05494; match to protein family HMM TIGR01409.	0.968
SPO2671	SPO3727	Membrane protein; Identified by similarity to GB:AAD17958.1; match to protein family HMM PF02405; match to protein family HMM TIGR00056.	VacJ lipoprotein, putative; Identified by similarity to SP:P43262; match to protein family HMM PF04333.	0.782
SPO2672	SPO1007	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	Identified by match to protein family HMM PF02470.	0.995
SPO2672	SPO2671	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	Membrane protein; Identified by similarity to GB:AAD17958.1; match to protein family HMM PF02405; match to protein family HMM TIGR00056.	0.999
SPO2672	SPO3726	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	Identified by match to protein family HMM PF05494; match to protein family HMM TIGR01409.	0.977
SPO2672	SPO3727	ABC transporter, ATP-binding protein; Identified by match to protein family HMM PF00005.	VacJ lipoprotein, putative; Identified by similarity to SP:P43262; match to protein family HMM PF04333.	0.785
SPO3430	SPO2290	Outer membrane porin; Identified by similarity to GB:CAA70599.1.	Hypothetical protein; 'Novel gene detected by proteogenomics, SPO_PG028; identified in over 20 other Roseobacter strains'.	0.402
SPO3430	SPO3727	Outer membrane porin; Identified by similarity to GB:CAA70599.1.	VacJ lipoprotein, putative; Identified by similarity to SP:P43262; match to protein family HMM PF04333.	0.621

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

45

average node degree:

8.18

avg. local clustering coefficient:

0.866

expected number of edges:

14

PPI enrichment p-value:

1.64e-11

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:0006418

tRNA aminoacylation for protein translation

6 of 43

2.41

4.56

7.38e-10

GO:0006264

Mitochondrial DNA replication

3 of 11

2.7

2.38

4.02e-05

GO:0106074

aminoacyl-tRNA metabolism involved in translational fidelity

3 of 13

2.63

2.3

5.61e-05

GO:0006419

alanyl-tRNA aminoacylation

2 of 2

3.26

1.79

0.00059

GO:0009059

Macromolecule biosynthetic process

9 of 1607

1.01

1.08

9.67e-06

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0004812

aminoacyl-tRNA ligase activity

6 of 45

2.39

4.87

1.31e-10

GO:0140640

Catalytic activity, acting on a nucleic acid

10 of 542

1.53

2.99

6.88e-12

GO:0140098

Catalytic activity, acting on RNA

7 of 336

1.58

2.47

7.14e-08

GO:0002161

aminoacyl-tRNA editing activity

3 of 15

2.56

2.35

4.18e-05

GO:0000049

tRNA binding

4 of 94

1.89

1.99

6.27e-05

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0017101

aminoacyl-tRNA synthetase multienzyme complex

3 of 12

2.66

2.21

8.39e-05

GO:0005760

Gamma DNA polymerase complex

2 of 3

3.09

1.64

0.0011

GO:0042645

Mitochondrial nucleoid

3 of 40

2.14

1.54

0.0011

GO:0005739

Mitochondrion

7 of 1640

0.89

0.71

0.0018

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:31610802

(2019) Aminoacyl tRNA synthetases as potential drug targets of the Panthera pathogen Babesia.

4 of 17

2.64

2.58

1.63e-05

PMID:29579307

(2018) A threonyl-tRNA synthetase-like protein has tRNA aminoacylation and editing activities.

3 of 11

2.7

1.58

0.0013

PMID:26109058

(2015) Nuclear respiratory factor 2 induces SIRT3 expression.

3 of 20

2.44

1.33

0.0035

PMID:22386318

(2012) Coding region polyadenylation generates a truncated tRNA synthetase that counters translation repression.

3 of 19

2.46

1.33

0.0035

PMID:37148543

(2023) Induction of endoplasmic reticulum stress is associated with the anti-tumor activity of monepantel across cancer types.

3 of 23

2.38

1.32

0.0036

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:1857

Aminoacyl-tRNA biosynthesis

6 of 30

2.56

5.3

4.26e-11

CL:1863

aminoacyl-tRNA synthetase multienzyme complex

4 of 5

3.17

4.61

3.85e-09

CL:2589

Mitochondrial transcription, and Gamma DNA polymerase complex

4 of 11

2.82

4.03

3.24e-08

CL:1899

alanyl-tRNA aminoacylation, and threonyl-tRNA aminoacylation

2 of 5

2.87

1.49

0.0020

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

cfa00970

Aminoacyl-tRNA biosynthesis

6 of 36

2.49

5.53

8.44e-12

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0017101

aminoacyl-tRNA synthetase multienzyme complex

4 of 13

2.75

3.59

2.06e-07

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0030

Aminoacyl-tRNA synthetase

5 of 18

2.71

5.07

2.27e-10

KW-0648

Protein biosynthesis

5 of 75

2.09

3.4

5.33e-08

KW-0820

tRNA-binding

3 of 10

2.74

2.95

3.52e-06

KW-0067

ATP-binding

5 of 770

1.08

0.84

0.0026

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF01411

tRNA synthetases class II (A)

2 of 3

3.09

1.22

0.0062

PF09334

tRNA synthetases class I (M)

2 of 8

2.66

1.02

0.0139

PF03129

Anticodon binding domain

2 of 10

2.56

1.02

0.0139

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00991

A conserved domain of 46 amino acids, called WHEP-TRS has been shown PUBMED:1756734 to exist in a number of higher eukaryote aminoacyl-transfer RNA synthetases. This domain is present one to six times in the several enzymes. There are three copies in ...

2 of 6

2.79

1.22

0.0061

SM00863

Threonyl and Alanyl tRNA synthetase second additional domain

2 of 6

2.79

1.22

0.0061

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