orf1_2 protein (Lactobacillus rapi) - 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

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

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[Homology]

Score

orf1_2

Addiction module antitoxin, RelB DinJ family. (95 aa)

Predicted Functional Partners:

KRL17325.1

0.947

KRL18303.1

0.776

KRL16243.1

0.773

KRL17250.1

0.420

KRL16701.1

0.402

Your Current Organism:

Lactobacillus rapi

NCBI taxonomy Id: 1423795
Other names: L. rapi DSM 19907 = JCM 15042, Lactobacillus rapi DSM 19907, Lactobacillus rapi DSM 19907 = JCM 15042, Lactobacillus rapi JCM 15042, Lactobacillus rapi JCM 15042 = DSM 19907

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
KRL16243.1	orf1_2	FD12_GL000156	FD12_GL001844	Hypothetical protein.	Addiction module antitoxin, RelB DinJ family.	0.773
KRL16701.1	orf1_2	FD12_GL002654	FD12_GL001844	Hypothetical protein.	Addiction module antitoxin, RelB DinJ family.	0.402
KRL17250.1	orf1_2	FD12_GL001913	FD12_GL001844	Hypothetical protein.	Addiction module antitoxin, RelB DinJ family.	0.420
KRL17325.1	orf1_2	FD12_GL001843	FD12_GL001844	Hypothetical protein.	Addiction module antitoxin, RelB DinJ family.	0.947
KRL18303.1	orf1_2	FD12_GL000009	FD12_GL001844	Hypothetical protein.	Addiction module antitoxin, RelB DinJ family.	0.776
orf1_2	KRL16243.1	FD12_GL001844	FD12_GL000156	Addiction module antitoxin, RelB DinJ family.	Hypothetical protein.	0.773
orf1_2	KRL16701.1	FD12_GL001844	FD12_GL002654	Addiction module antitoxin, RelB DinJ family.	Hypothetical protein.	0.402
orf1_2	KRL17250.1	FD12_GL001844	FD12_GL001913	Addiction module antitoxin, RelB DinJ family.	Hypothetical protein.	0.420
orf1_2	KRL17325.1	FD12_GL001844	FD12_GL001843	Addiction module antitoxin, RelB DinJ family.	Hypothetical protein.	0.947
orf1_2	KRL18303.1	FD12_GL001844	FD12_GL000009	Addiction module antitoxin, RelB DinJ family.	Hypothetical protein.	0.776

Network Stats

number of nodes:

11

number of edges:

14

average node degree:

2.55

avg. local clustering coefficient:

0.917

expected number of edges:

10

PPI enrichment p-value:

0.166

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?)
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Biological Process (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0006418

tRNA aminoacylation for protein translation

8 of 22

1.79

3.57

2.24e-10

GO:0006520

Cellular amino acid metabolic process

9 of 93

1.22

1.68

3.30e-08

GO:0044271

Cellular nitrogen compound biosynthetic process

10 of 246

0.84

0.86

1.63e-06

GO:1901566

Organonitrogen compound biosynthetic process

10 of 266

0.81

2.34e-06

GO:0044281

Small molecule metabolic process

10 of 291

0.77

0.75

4.92e-06

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0004812

aminoacyl-tRNA ligase activity

8 of 23

1.77

3.56

1.35e-10

GO:0016874

Ligase activity

10 of 77

1.34

2.24

1.35e-10

GO:0002161

aminoacyl-tRNA editing activity

3 of 6

1.93

1.7

0.00035

GO:0000049

tRNA binding

4 of 26

1.42

1.33

0.00041

GO:0016884

Carbon-nitrogen ligase activity, with glutamine as amido-N-donor

2 of 8

1.63

0.78

0.0275

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005737

Cytoplasm

10 of 623

0.44

0.32

0.0119

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:342

Aminoacyl-tRNA synthetase, class Ia, anticodon-binding

5 of 5

2.23

3.4

1.26e-07

CL:339

Aminoacyl-tRNA synthetase

6 of 11

1.97

3.28

3.91e-08

CL:66

Translation, and Chaperone

7 of 158

0.88

0.73

0.00092

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

phar00970

Aminoacyl-tRNA biosynthesis

6 of 18

1.75

2.84

6.08e-08

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0030

Aminoacyl-tRNA synthetase

8 of 21

1.81

3.91

1.42e-11

KW-0436

Ligase

10 of 56

1.48

2.88

2.39e-12

KW-0648

Protein biosynthesis

8 of 37

1.57

2.85

4.65e-10

KW-0067

ATP-binding

10 of 185

0.96

1.13

4.58e-08

KW-0963

Cytoplasm

8 of 179

0.88

0.86

2.78e-05

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF08264

Anticodon-binding domain of tRNA ligase

3 of 4

2.11

1.48

0.0014

PF00133

tRNA synthetases class I (I, L, M and V)

2 of 2

2.23

0.86

0.0258

PF09334

tRNA synthetases class I (M)

2 of 4

1.93

0.73

0.0427

PF01588

Putative tRNA binding domain

2 of 4

1.93

0.73

0.0427

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR009080

Aminoacyl-tRNA synthetase, class Ia, anticodon-binding

4 of 6

2.06

2.16

4.35e-05

IPR014729

Rossmann-like alpha/beta/alpha sandwich fold

6 of 29

1.55

1.94

7.60e-06

IPR002300

Aminoacyl-tRNA synthetase, class Ia

3 of 4

2.11

1.53

0.0011

IPR001412

Aminoacyl-tRNA synthetase, class I, conserved site

3 of 5

2.01

1.46

0.0014

IPR006195

Aminoacyl-tRNA synthetase, class II

3 of 9

1.75

1.17

0.0042

(more ...)

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