gsiA_14 protein (Klebsiella aerogenes) - 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

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second shell of interactors

Node Content

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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:

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Gene Fusion

Cooccurrence

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Experiments

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Score

gsiA_14

Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily. (326 aa)

Predicted Functional Partners:

gsiD_4

0.996

AML34993.1

0.983

AML38966.1

0.983

oppC

0.982

ddpC_4

0.981

nikC

0.979

gsiD_5

0.977

dppC

0.976

gsiC_4

0.965

sapC

0.870

Your Current Organism:

Klebsiella aerogenes

NCBI taxonomy Id: 548
Other names: ATCC 13048, Aerobacter aerogenes, CIP 60.86, DSM 30053, Enterobacter aerogenes, HAMBI 101, IFO 13534, K. aerogenes, KCTC 2190, Klebsiella mobilis, LMG 2094, LMG:2094, NBRC 13534, NCAIM B.01467, NCTC 10006

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
AML34993.1	gsiA_14	EAG7_01247	EAG7_01902	Dipeptide transport system permease protein DppC.	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	0.983
AML34993.1	gsiC_4	EAG7_01247	EAG7_01900	Dipeptide transport system permease protein DppC.	Putative peptide permease protein.	0.849
AML34993.1	gsiD_5	EAG7_01247	EAG7_02539	Dipeptide transport system permease protein DppC.	Glutathione transport system permease protein GsiD.	0.908
AML38966.1	gsiA_14	EAG7_05236	EAG7_01902	Putative D,D-dipeptide transport system permease protein DdpC.	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	0.983
AML38966.1	gsiC_4	EAG7_05236	EAG7_01900	Putative D,D-dipeptide transport system permease protein DdpC.	Putative peptide permease protein.	0.851
ddpC_4	gsiA_14	EAG7_01469	EAG7_01902	Putative peptide transport system permease protein.	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	0.981
ddpC_4	gsiC_4	EAG7_01469	EAG7_01900	Putative peptide transport system permease protein.	Putative peptide permease protein.	0.844
dppC	gsiA_14	EAG7_04309	EAG7_01902	Dipeptide transport system permease protein DppC.	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	0.976
dppC	gsiC_4	EAG7_04309	EAG7_01900	Dipeptide transport system permease protein DppC.	Putative peptide permease protein.	0.843
gsiA_14	AML34993.1	EAG7_01902	EAG7_01247	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	Dipeptide transport system permease protein DppC.	0.983
gsiA_14	AML38966.1	EAG7_01902	EAG7_05236	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	Putative D,D-dipeptide transport system permease protein DdpC.	0.983
gsiA_14	ddpC_4	EAG7_01902	EAG7_01469	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	Putative peptide transport system permease protein.	0.981
gsiA_14	dppC	EAG7_01902	EAG7_04309	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	Dipeptide transport system permease protein DppC.	0.976
gsiA_14	gsiC_4	EAG7_01902	EAG7_01900	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	Putative peptide permease protein.	0.965
gsiA_14	gsiD_4	EAG7_01902	EAG7_01901	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	Putative peptide permease protein.	0.996
gsiA_14	gsiD_5	EAG7_01902	EAG7_02539	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	Glutathione transport system permease protein GsiD.	0.977
gsiA_14	nikC	EAG7_01902	EAG7_04357	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	Nickel transport system permease protein NikC.	0.979
gsiA_14	oppC	EAG7_01902	EAG7_02048	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	Oligopeptide transport system permease protein OppC.	0.982
gsiA_14	sapC	EAG7_01902	EAG7_01179	Oligopeptide transport ATP-binding protein AppD; Belongs to the ABC transporter superfamily.	Peptide transport system permease protein SapC.	0.870
gsiC_4	AML34993.1	EAG7_01900	EAG7_01247	Putative peptide permease protein.	Dipeptide transport system permease protein DppC.	0.849

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Network Stats

number of nodes:

11

number of edges:

27

average node degree:

4.91

avg. local clustering coefficient:

0.845

expected number of edges:

10

PPI enrichment p-value:

1.33e-05

your network has 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:0000724

Double-strand break repair via homologous recombination

5 of 53

2.24

3.28

2.40e-07

GO:0006281

DNA repair

6 of 192

1.76

2.58

5.16e-07

GO:0006259

DNA metabolic process

7 of 289

1.65

2.48

2.40e-07

GO:0006260

DNA replication

4 of 103

1.85

1.81

0.00015

GO:0006289

Nucleotide-excision repair

3 of 34

2.21

1.74

0.00047

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003697

Single-stranded DNA binding

3 of 39

2.15

1.32

0.0032

GO:0000014

Single-stranded DNA endodeoxyribonuclease activity

2 of 4

2.96

1.29

0.0047

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0000228

Nuclear chromosome

4 of 95

1.89

1.79

0.00019

GO:0005662

DNA replication factor A complex

2 of 3

3.09

1.58

0.0014

GO:0035861

Site of double-strand break

2 of 15

2.39

1.24

0.0052

GO:0000781

Chromosome, telomeric region

2 of 14

2.42

1.24

0.0052

GO:0032993

protein-DNA complex

3 of 96

1.76

1.14

0.0049

(more ...)

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:34186335

(2021) Mechanism of mitotic recombination: insights from C. elegans.

4 of 28

2.42

2.15

8.99e-05

PMID:35871299

(2022) R-loop-induced irreparable DNA damage evades checkpoint detection in the C. elegans germline.

4 of 33

2.35

2.13

8.99e-05

PMID:35137093

(2022) DNA repair, recombination, and damage signaling.

5 of 176

1.72

1.55

0.00043

PMID:24694239

(2014) Genome-wide variations in a natural isolate of the nematode Caenorhabditis elegans.

3 of 20

2.44

1.38

0.0028

PMID:33798260

(2021) DNA topoisomerase 3 is required for efficient germ cell quality control.

3 of 36

2.18

1.06

0.0106

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:24208

Mostly uncharacterized, incl. Nucleoredoxin-like protein 2, and BRCA1-A complex

5 of 19

2.68

4.53

2.63e-09

CL:1874

Mixed, incl. Fanconi anemia pathway, and HDR through Single Strand Annealing (SSA)

5 of 55

2.22

3.51

6.71e-08

CL:1872

DNA repair, and Activation of the pre-replicative complex

6 of 125

1.94

3.25

3.75e-08

CL:1875

Homologous recombination, and Homologous DNA Pairing and Strand Exchange

4 of 28

2.42

3.16

8.01e-07

CL:24210

Mostly uncharacterized, incl. BRCA1-A complex, and SGF29 tudor-like domain

3 of 12

2.66

2.51

2.28e-05

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

cel03460

Fanconi anemia pathway

3 of 25

2.34

2.25

5.13e-05

cel03030

DNA replication

3 of 34

2.21

2.17

6.06e-05

cel03420

Nucleotide excision repair

3 of 37

2.17

2.15

6.06e-05

cel03430

Mismatch repair

2 of 18

2.31

1.48

0.0017

cel03440

Homologous recombination

2 of 20

2.26

1.47

0.0017

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-5685938

HDR through Single Strand Annealing (SSA)

4 of 31

2.37

2.86

3.10e-06

MAP-69190

DNA strand elongation

3 of 28

2.29

2.11

9.08e-05

MAP-69473

G2/M DNA damage checkpoint

4 of 77

1.98

2.1

4.87e-05

MAP-6804756

Regulation of TP53 Activity through Phosphorylation

4 of 91

1.91

2.05

4.87e-05

MAP-5693567

HDR through Homologous Recombination (HRR) or Single Strand Annealing (SSA)

4 of 112

1.82

1.89

8.30e-05

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005662

DNA replication factor A complex

2 of 5

2.87

1.27

0.0051

GOCC:0035861

Site of double-strand break

2 of 14

2.42

1.11

0.0091

GOCC:0000228

Nuclear chromosome

4 of 210

1.54

1.05

0.0051

GOCC:0032993

protein-DNA complex

3 of 113

1.69

1.0

0.0091

GOCC:0031981

Nuclear lumen

5 of 707

1.11

0.76

0.0080

(more ...)

C. elegans Phenotype Ontology (Monarch)

phenotype

description

count in network

strength

signal

false discovery rate

WBP:0000732

DNA metabolism variant

3 of 55

2.0

1.11

0.0073

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR040260

Replication factor A protein-like

2 of 2

3.26

1.24

0.0060

IPR012340

Nucleic acid-binding, OB-fold

3 of 69

1.9

0.98

0.0130

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