AKU97282.1 protein (Labilithrix luteola) - 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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second shell of interactors

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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

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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

AKU97282.1

RNA polymerase sigma-70 factor, ECF subfamily. (177 aa)

Predicted Functional Partners:

AKU97281.1

0.773

AKU94897.1

0.556

AKU94860.1

0.530

AKU98229.1

0.524

AKV00583.1

0.512

AKU97280.1

0.509

AKU94868.1

0.506

AKV02694.1

0.497

AKU97870.1

0.486

AKU98615.1

0.471

Your Current Organism:

Labilithrix luteola

NCBI taxonomy Id: 1391654
Other names: DSM 27648, L. luteola, Labilithrix luteola Yamamoto et al. 2014, NBRC 109946, Sorangiineae bacterium B00002, strain B00002

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
AKU94860.1	AKU97282.1	AKJ09_01524	AKJ09_03946	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.530
AKU94868.1	AKU97282.1	AKJ09_01532	AKJ09_03946	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.506
AKU94897.1	AKU97282.1	AKJ09_01561	AKJ09_03946	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.556
AKU97280.1	AKU97281.1	AKJ09_03944	AKJ09_03945	Peptidase C14 caspase catalytic subunit p20.	Hypothetical protein.	0.509
AKU97280.1	AKU97282.1	AKJ09_03944	AKJ09_03946	Peptidase C14 caspase catalytic subunit p20.	RNA polymerase sigma-70 factor, ECF subfamily.	0.509
AKU97281.1	AKU97280.1	AKJ09_03945	AKJ09_03944	Hypothetical protein.	Peptidase C14 caspase catalytic subunit p20.	0.509
AKU97281.1	AKU97282.1	AKJ09_03945	AKJ09_03946	Hypothetical protein.	RNA polymerase sigma-70 factor, ECF subfamily.	0.773
AKU97282.1	AKU94860.1	AKJ09_03946	AKJ09_01524	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	0.530
AKU97282.1	AKU94868.1	AKJ09_03946	AKJ09_01532	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	0.506
AKU97282.1	AKU94897.1	AKJ09_03946	AKJ09_01561	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	0.556
AKU97282.1	AKU97280.1	AKJ09_03946	AKJ09_03944	RNA polymerase sigma-70 factor, ECF subfamily.	Peptidase C14 caspase catalytic subunit p20.	0.509
AKU97282.1	AKU97281.1	AKJ09_03946	AKJ09_03945	RNA polymerase sigma-70 factor, ECF subfamily.	Hypothetical protein.	0.773
AKU97282.1	AKU97870.1	AKJ09_03946	AKJ09_04534	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	0.486
AKU97282.1	AKU98229.1	AKJ09_03946	AKJ09_04893	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	0.524
AKU97282.1	AKU98615.1	AKJ09_03946	AKJ09_05279	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	0.471
AKU97282.1	AKV00583.1	AKJ09_03946	AKJ09_07246	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	0.512
AKU97282.1	AKV02694.1	AKJ09_03946	AKJ09_09357	RNA polymerase sigma-70 factor, ECF subfamily.	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	0.497
AKU97870.1	AKU97282.1	AKJ09_04534	AKJ09_03946	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.486
AKU98229.1	AKU97282.1	AKJ09_04893	AKJ09_03946	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.524
AKU98615.1	AKU97282.1	AKJ09_05279	AKJ09_03946	RNA polymerase sigma factor RpoE; Belongs to the sigma-70 factor family. ECF subfamily.	RNA polymerase sigma-70 factor, ECF subfamily.	0.471

page 1 of 2

Network Stats

number of nodes:

11

number of edges:

22

average node degree:

4

avg. local clustering coefficient:

0.782

expected number of edges:

15

PPI enrichment p-value:

0.0566

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:0000387

Spliceosomal snRNP assembly

4 of 19

2.36

2.57

1.18e-05

GO:0045004

DNA replication proofreading

2 of 3

2.87

1.46

0.0023

GO:0006287

Base-excision repair, gap-filling

2 of 3

2.87

1.46

0.0023

GO:0006297

Nucleotide-excision repair, DNA gap filling

2 of 5

2.64

1.38

0.0030

GO:0006289

Nucleotide-excision repair

3 of 39

1.93

1.34

0.0023

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0004536

Deoxyribonuclease activity

4 of 27

2.21

2.41

1.86e-05

GO:0003887

DNA-directed DNA polymerase activity

3 of 21

2.2

1.75

0.00045

GO:0140097

Catalytic activity, acting on DNA

5 of 159

1.54

1.61

0.00011

GO:0008296

3-5-exodeoxyribonuclease activity

2 of 8

2.44

1.18

0.0068

GO:0004520

Endodeoxyribonuclease activity

2 of 16

2.14

1.0

0.0135

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0043625

Delta DNA polymerase complex

3 of 4

2.92

2.62

1.64e-05

GO:0005682

U5 snRNP

3 of 12

2.44

2.26

5.65e-05

GO:0071011

Precatalytic spliceosome

3 of 15

2.34

2.23

5.65e-05

GO:0005685

U1 snRNP

3 of 15

2.34

2.23

5.65e-05

GO:0005686

U2 snRNP

3 of 18

2.26

2.19

6.17e-05

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:11192

Mixed, incl. DNA biosynthetic process, and HDR through Homologous Recombination (HRR) or Single Strand Annealing (SSA)

5 of 73

1.88

2.3

9.38e-06

CL:11298

DNA polymerase complex

3 of 11

2.48

2.24

6.24e-05

CL:6903

Spliceosomal snRNP complex, and Cleavage/polyadenylation specificity factor, A subunit, N-terminal

3 of 35

1.97

1.54

0.00090

CL:6930

mRNA splicing, and U1 snRNA binding

2 of 6

2.56

1.36

0.0032

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03440

Homologous recombination

4 of 56

1.9

2.14

2.69e-05

map03420

Nucleotide excision repair

4 of 67

1.82

2.08

2.69e-05

map03410

Base excision repair

3 of 42

1.9

1.66

0.00040

map03430

Mismatch repair

3 of 52

1.8

1.56

0.00055

map03030

DNA replication

3 of 68

1.69

1.4

0.00095

(more ...)

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-69183

Processive synthesis on the lagging strand

3 of 31

2.03

1.34

0.0026

MAP-69166

Removal of the Flap Intermediate

3 of 29

2.06

1.34

0.0026

MAP-69186

Lagging Strand Synthesis

3 of 37

1.95

1.32

0.0026

MAP-69190

DNA strand elongation

3 of 43

1.89

1.3

0.0026

MAP-69239

Synthesis of DNA

3 of 70

1.67

1.07

0.0063

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0043625

Delta DNA polymerase complex

3 of 6

2.74

2.36

4.64e-05

GOCC:0034719

SMN-Sm protein complex

2 of 4

2.74

1.55

0.0015

GOCC:0000228

Nuclear chromosome

4 of 164

1.43

1.17

0.0015

GOCC:0032991

Protein-containing complex

8 of 2482

0.55

0.36

0.0278

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0239

DNA-directed DNA polymerase

2 of 6

2.56

1.25

0.0051

KW-0508

mRNA splicing

2 of 10

2.34

1.24

0.0051

KW-0004

4Fe-4S

2 of 11

2.3

1.23

0.0051

KW-0687

Ribonucleoprotein

3 of 81

1.61

1.08

0.0051

KW-0235

DNA replication

2 of 28

1.9

1.06

0.0087

(more ...)

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF14260

C4-type zinc-finger of DNA polymerase delta

2 of 2

3.04

1.28

0.0049

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR047575

Sm domain

3 of 16

2.31

1.49

0.0016

IPR001163

Sm domain, eukaryotic/archaea-type

3 of 16

2.31

1.49

0.0016

IPR010920

LSM domain superfamily

3 of 19

2.24

1.48

0.0016

IPR027248

Small nuclear ribonucleoprotein Sm D2

2 of 2

3.04

1.37

0.0034

IPR025687

C4-type zinc-finger of DNA polymerase delta

2 of 2

3.04

1.37

0.0034

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00651

snRNP Sm proteins

3 of 13

2.4

2.1

0.00011

SM00891

ERCC4 domain

2 of 3

2.87

1.59

0.0013

SM00486

DNA polymerase type-B family

2 of 5

2.64

1.5

0.0018

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