GAP44967.1 protein (Lentimicrobium saccharophilum)

Nodes:

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second shell of interactors

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a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

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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

GAP44967.1

Peptidase family M23. (573 aa)

Predicted Functional Partners:

GAP43456.1

0.665

GAP42527.1

0.604

GAP44166.1

0.541

GAP44970.1

0.517

GAP44314.1

0.470

GAP43821.1

0.439

TBC1_1143

0.436

GAP42850.1

0.436

GAP42422.1

0.422

GAP45024.1

0.415

Your Current Organism:

Lentimicrobium saccharophilum

NCBI taxonomy Id: 1678841
Other names: Bacteroidales bacterium TBC1, DSM 100618, JCM 30898, L. saccharophilum, Lentimicrobium saccharophilum Sun et al. 2016, strain TBC1

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
GAP42422.1	GAP42527.1	TBC1_11551	TBC1_11658	Protein containing sporulation related domain.	Hypothetical protein.	0.520
GAP42422.1	GAP43821.1	TBC1_11551	TBC1_111979	Protein containing sporulation related domain.	Colicin V production protein.	0.480
GAP42422.1	GAP44967.1	TBC1_11551	TBC1_12783	Protein containing sporulation related domain.	Peptidase family M23.	0.422
GAP42422.1	GAP44970.1	TBC1_11551	TBC1_12786	Protein containing sporulation related domain.	Hypothetical protein.	0.572
GAP42527.1	GAP42422.1	TBC1_11658	TBC1_11551	Hypothetical protein.	Protein containing sporulation related domain.	0.520
GAP42527.1	GAP42850.1	TBC1_11658	TBC1_11990	Hypothetical protein.	Hypothetical protein.	0.554
GAP42527.1	GAP44314.1	TBC1_11658	TBC1_12115	Hypothetical protein.	Plasmid pRiA4b ORF-3-like protein.	0.749
GAP42527.1	GAP44967.1	TBC1_11658	TBC1_12783	Hypothetical protein.	Peptidase family M23.	0.604
GAP42527.1	TBC1_1143	TBC1_11658	TBC1_1143	Hypothetical protein.	Uncharacterized metal-binding protein YceD, DUF177 family.	0.479
GAP42850.1	GAP42527.1	TBC1_11990	TBC1_11658	Hypothetical protein.	Hypothetical protein.	0.554
GAP42850.1	GAP44314.1	TBC1_11990	TBC1_12115	Hypothetical protein.	Plasmid pRiA4b ORF-3-like protein.	0.571
GAP42850.1	GAP44967.1	TBC1_11990	TBC1_12783	Hypothetical protein.	Peptidase family M23.	0.436
GAP42850.1	TBC1_1143	TBC1_11990	TBC1_1143	Hypothetical protein.	Uncharacterized metal-binding protein YceD, DUF177 family.	0.761
GAP43456.1	GAP44967.1	TBC1_111609	TBC1_12783	Murein DD-endopeptidase MepM and murein hydrolase activator NlpD.	Peptidase family M23.	0.665
GAP43821.1	GAP42422.1	TBC1_111979	TBC1_11551	Colicin V production protein.	Protein containing sporulation related domain.	0.480
GAP43821.1	GAP44967.1	TBC1_111979	TBC1_12783	Colicin V production protein.	Peptidase family M23.	0.439
GAP43821.1	GAP44970.1	TBC1_111979	TBC1_12786	Colicin V production protein.	Hypothetical protein.	0.450
GAP44166.1	GAP44967.1	TBC1_112329	TBC1_12783	Septal ring factor EnvC, activator of murein hydrolases AmiA and AmiB.	Peptidase family M23.	0.541
GAP44314.1	GAP42527.1	TBC1_12115	TBC1_11658	Plasmid pRiA4b ORF-3-like protein.	Hypothetical protein.	0.749
GAP44314.1	GAP42850.1	TBC1_12115	TBC1_11990	Plasmid pRiA4b ORF-3-like protein.	Hypothetical protein.	0.571

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

34

average node degree:

6.18

avg. local clustering coefficient:

0.927

expected number of edges:

13

PPI enrichment p-value:

9.31e-07

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:0006260

DNA replication

8 of 37

1.85

3.97

2.29e-11

GO:0034654

Nucleobase-containing compound biosynthetic process

11 of 159

1.35

2.42

1.33e-12

GO:0009059

Macromolecule biosynthetic process

10 of 244

1.12

1.52

4.64e-09

GO:0090304

Nucleic acid metabolic process

10 of 304

1.03

1.27

3.25e-08

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003887

DNA-directed DNA polymerase activity

8 of 12

2.34

6.43

1.10e-14

GO:0016779

Nucleotidyltransferase activity

10 of 52

1.8

4.51

8.81e-15

GO:0140640

Catalytic activity, acting on a nucleic acid

10 of 182

1.25

1.93

2.93e-10

GO:0004527

Exonuclease activity

4 of 23

1.75

1.9

5.82e-05

GO:0003677

DNA binding

9 of 262

1.05

1.25

3.07e-07

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0061695

Transferase complex, transferring phosphorus-containing groups

7 of 15

2.18

5.06

5.31e-12

GO:0009360

DNA polymerase III complex

5 of 5

2.51

4.68

6.75e-10

GO:0140535

Intracellular protein-containing complex

7 of 26

1.94

4.16

4.39e-11

GO:1902494

Catalytic complex

8 of 79

1.52

2.69

4.87e-10

GO:0000428

DNA-directed RNA polymerase complex

2 of 7

1.97

1.17

0.0055

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:634

DNA polymerase activity

8 of 10

2.41

6.66

8.72e-15

CL:637

DNA polymerase complex

5 of 5

2.51

4.37

3.19e-09

CL:279

RNA polymerase

2 of 5

2.11

0.9

0.0207

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

woc03030

DNA replication

8 of 17

2.18

5.85

2.91e-14

woc03430

Mismatch repair

8 of 18

2.16

5.78

2.91e-14

woc03440

Homologous recombination

8 of 22

2.07

5.42

5.22e-14

woc03020

RNA polymerase

2 of 4

2.21

1.31

0.0035

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0009360

DNA polymerase III complex

8 of 9

2.46

7.05

1.78e-15

GOCC:0061695

Transferase complex, transferring phosphorus-containing groups

10 of 59

1.74

4.33

3.87e-15

GOCC:1902494

Catalytic complex

11 of 200

1.25

2.08

1.38e-12

GOCC:0044776

DNA polymerase III, core complex

2 of 2

2.51

1.48

0.0019

GOCC:0005622

Intracellular

11 of 1359

0.42

0.35

0.0011

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0239

DNA-directed DNA polymerase

4 of 7

2.27

2.92

1.71e-06

KW-0548

Nucleotidyltransferase

6 of 31

1.8

2.9

7.69e-08

KW-0235

DNA replication

4 of 19

1.83

2.07

3.00e-05

KW-0240

DNA-directed RNA polymerase

2 of 6

2.03

1.05

0.0103

KW-0808

Transferase

7 of 311

0.86

0.74

0.00053

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00479

Exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases

2 of 4

2.21

0.99

0.0143

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