JF75_03640 protein (Lactobacillus kimbladii)

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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

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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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Cooccurrence

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Experiments

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[Homology]

Score

JF75_03640

Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily. (361 aa)

Predicted Functional Partners:

JF75_03650

0.999

JF75_03660

0.999

JF75_03680

0.998

JF75_03690

0.997

JF75_18090

0.997

JF75_18100

0.995

JF75_18110

0.995

JF75_03670

0.929

JF75_12610

0.895

JF75_00730

0.820

Your Current Organism:

Lactobacillus kimbladii

NCBI taxonomy Id: 1218506
Other names: CCUG 63633, DSM 26263, L. kimbladii, Lactobacillus kimbladii Olofsson et al. 2014, Lactobacillus sp. H6HS28N, Lactobacillus sp. Hma2N, strain Hma2N

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Browse interactions in tabular form:

node1	node2	node1 annotation	node2 annotation	score
JF75_00730	JF75_03640	ABC superfamily ATP binding cassette transporter, ABC protein.	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	0.820
JF75_03640	JF75_00730	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	ABC superfamily ATP binding cassette transporter, ABC protein.	0.820
JF75_03640	JF75_03650	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	ABC superfamily ATP binding cassette transporter, membrane protein.	0.999
JF75_03640	JF75_03660	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	ABC superfamily ATP binding cassette transporter, permease protein.	0.999
JF75_03640	JF75_03670	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	Metallo-beta-lactamase superfamily hydrolase.	0.929
JF75_03640	JF75_03680	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	Glycerol-3-phosphate ABC transporter.	0.998
JF75_03640	JF75_03690	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	ABC superfamily ATP binding cassette transporter.	0.997
JF75_03640	JF75_12610	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	Multidrug ABC transporter ATP binding protein.	0.895
JF75_03640	JF75_18090	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	Maltose ABC transporter permease protein.	0.997
JF75_03640	JF75_18100	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	Maltose ABC transporter permease.	0.995
JF75_03640	JF75_18110	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	Maltose ABC superfamily ATP binding cassette transporter substrate binding protein.	0.995
JF75_03650	JF75_03640	ABC superfamily ATP binding cassette transporter, membrane protein.	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	0.999
JF75_03650	JF75_03660	ABC superfamily ATP binding cassette transporter, membrane protein.	ABC superfamily ATP binding cassette transporter, permease protein.	0.999
JF75_03650	JF75_03670	ABC superfamily ATP binding cassette transporter, membrane protein.	Metallo-beta-lactamase superfamily hydrolase.	0.929
JF75_03650	JF75_03680	ABC superfamily ATP binding cassette transporter, membrane protein.	Glycerol-3-phosphate ABC transporter.	0.999
JF75_03650	JF75_03690	ABC superfamily ATP binding cassette transporter, membrane protein.	ABC superfamily ATP binding cassette transporter.	0.999
JF75_03650	JF75_12610	ABC superfamily ATP binding cassette transporter, membrane protein.	Multidrug ABC transporter ATP binding protein.	0.637
JF75_03650	JF75_18090	ABC superfamily ATP binding cassette transporter, membrane protein.	Maltose ABC transporter permease protein.	0.995
JF75_03650	JF75_18110	ABC superfamily ATP binding cassette transporter, membrane protein.	Maltose ABC superfamily ATP binding cassette transporter substrate binding protein.	0.983
JF75_03660	JF75_03640	ABC superfamily ATP binding cassette transporter, permease protein.	Multiple sugar-binding ABC-transporter ATPase protein; Belongs to the ABC transporter superfamily.	0.999

page 1 of 5

Network Stats

number of nodes:

11

number of edges:

26

average node degree:

4.73

avg. local clustering coefficient:

0.941

expected number of edges:

31

PPI enrichment p-value:

0.838

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:0006284

Base-excision repair

5 of 22

2.45

3.83

3.44e-08

GO:0006281

DNA repair

7 of 250

1.54

2.32

1.46e-07

GO:0006259

DNA metabolic process

8 of 345

1.46

2.24

3.97e-08

GO:0006285

Base-excision repair, AP site formation

2 of 8

2.49

1.27

0.0046

GO:0090305

Nucleic acid phosphodiester bond hydrolysis

4 of 166

1.48

1.21

0.0014

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003906

DNA-(apurinic or apyrimidinic site) endonuclease activity

4 of 6

2.92

3.86

7.63e-08

GO:0140097

Catalytic activity, acting on DNA

6 of 150

1.7

2.44

7.10e-07

GO:0008408

3-5 exonuclease activity

3 of 22

2.23

1.86

0.00028

GO:0016796

Exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5-phosphomonoesters

3 of 25

2.17

1.8

0.00034

GO:0008309

Double-stranded DNA exodeoxyribonuclease activity

2 of 2

3.09

1.73

0.00074

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005634

Nucleus

9 of 2544

0.64

0.45

0.0088

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:9912

Base-excision repair

5 of 12

2.71

4.81

7.49e-10

CL:9917

DNA-(apurinic or apyrimidinic site) endonuclease activity

4 of 6

2.92

4.13

2.42e-08

CL:9547

DNA metabolic process

8 of 198

1.7

3.19

7.49e-10

CL:14867

Purine-containing compound salvage, and Nucleotide catabolism

3 of 29

2.11

1.61

0.00077

CL:9553

Mixed, incl. Mismatch repair, and HDR through Single Strand Annealing (SSA)

3 of 70

1.73

1.07

0.0068

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03410

Base excision repair

5 of 47

2.12

3.47

4.57e-08

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-73621

Pyrimidine catabolism

2 of 3

2.92

1.25

0.0056

MAP-74259

Purine catabolism

2 of 14

2.25

0.9

0.0222

MAP-8956319

Nucleotide catabolism

2 of 16

2.19

0.89

0.0222

MAP-196807

Nicotinate metabolism

2 of 17

2.16

0.89

0.0222

MAP-73894

DNA Repair

4 of 240

1.32

0.8

0.0140

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF03372

Endonuclease/Exonuclease/phosphatase family

2 of 6

2.62

0.96

0.0181

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR041823

YHR202W-like, N-terminal metallophosphatase domain

2 of 2

3.09

1.09

0.0107

IPR036907

5-Nucleotidase, C-terminal domain superfamily

2 of 3

2.92

1.09

0.0107

IPR014485

Predicted phosphoesterase, C1039.02 type

2 of 2

3.09

1.09

0.0107

IPR006179

5-Nucleotidase/apyrase

2 of 3

2.92

1.09

0.0107

IPR004808

AP endonuclease 1

2 of 2

3.09

1.09

0.0107

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00478

Endonuclease III

2 of 5

2.7

1.31

0.0042

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