atpB protein (Arthromitus sp. SFBmouseJapan)

Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

Node Color

colored nodes:
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

Your Input:

Neighborhood

Gene Fusion

Cooccurrence

Coexpression

Experiments

Databases

Textmining

[Homology]

Score

atpB

V-type ATP synthase subunit B; Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit. (459 aa)

Predicted Functional Partners:

SFBM_0317

0.999

SFBM_0318

0.999

SFBM_0319

0.999

SFBM_0320

0.999

SFBM_0321

0.999

atpA

0.999

atpD

0.999

SFBM_0316

0.955

SFBM_1181

0.900

eno

0.667

Your Current Organism:

Arthromitus sp. SFBmouseJapan

NCBI taxonomy Id: 1029718
Other names: C. Arthromitus sp. SFB-mouse-Japan, Candidatus Arthromitus sp. SFB-mouse-Japan

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a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

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a tab-delimited file containing all known functional terms of protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SFBM_0316	SFBM_0317	SFBM_0316	SFBM_0317	V-type sodium ATP synthase subunit G.	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	0.976
SFBM_0316	SFBM_0318	SFBM_0316	SFBM_0318	V-type sodium ATP synthase subunit G.	V-type ATP synthase subunit K; Belongs to the V-ATPase proteolipid subunit family.	0.965
SFBM_0316	SFBM_0319	SFBM_0316	SFBM_0319	V-type sodium ATP synthase subunit G.	V-type ATP synthase subunit E.	0.960
SFBM_0316	SFBM_0320	SFBM_0316	SFBM_0320	V-type sodium ATP synthase subunit G.	V-type ATP synthase subunit C.	0.958
SFBM_0316	SFBM_0321	SFBM_0316	SFBM_0321	V-type sodium ATP synthase subunit G.	V-type ATP synthase subunit F.	0.958
SFBM_0316	SFBM_1181	SFBM_0316	SFBM_1181	V-type sodium ATP synthase subunit G.	HAD-superfamily hydrolase, subfamily IA.	0.900
SFBM_0316	atpA	SFBM_0316	SFBM_0322	V-type sodium ATP synthase subunit G.	V-type ATP synthase subunit A; Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit. Belongs to the ATPase alpha/beta chains family.	0.955
SFBM_0316	atpB	SFBM_0316	SFBM_0323	V-type sodium ATP synthase subunit G.	V-type ATP synthase subunit B; Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit.	0.955
SFBM_0316	atpD	SFBM_0316	SFBM_0324	V-type sodium ATP synthase subunit G.	V-type ATP synthase subunit D; Produces ATP from ADP in the presence of a proton gradient across the membrane.	0.953
SFBM_0317	SFBM_0316	SFBM_0317	SFBM_0316	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	V-type sodium ATP synthase subunit G.	0.976
SFBM_0317	SFBM_0318	SFBM_0317	SFBM_0318	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	V-type ATP synthase subunit K; Belongs to the V-ATPase proteolipid subunit family.	0.999
SFBM_0317	SFBM_0319	SFBM_0317	SFBM_0319	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	V-type ATP synthase subunit E.	0.999
SFBM_0317	SFBM_0320	SFBM_0317	SFBM_0320	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	V-type ATP synthase subunit C.	0.999
SFBM_0317	SFBM_0321	SFBM_0317	SFBM_0321	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	V-type ATP synthase subunit F.	0.999
SFBM_0317	SFBM_1181	SFBM_0317	SFBM_1181	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	HAD-superfamily hydrolase, subfamily IA.	0.900
SFBM_0317	atpA	SFBM_0317	SFBM_0322	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	V-type ATP synthase subunit A; Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type alpha chain is a catalytic subunit. Belongs to the ATPase alpha/beta chains family.	0.999
SFBM_0317	atpB	SFBM_0317	SFBM_0323	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	V-type ATP synthase subunit B; Produces ATP from ADP in the presence of a proton gradient across the membrane. The V-type beta chain is a regulatory subunit.	0.999
SFBM_0317	atpD	SFBM_0317	SFBM_0324	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	V-type ATP synthase subunit D; Produces ATP from ADP in the presence of a proton gradient across the membrane.	0.999
SFBM_0318	SFBM_0316	SFBM_0318	SFBM_0316	V-type ATP synthase subunit K; Belongs to the V-ATPase proteolipid subunit family.	V-type sodium ATP synthase subunit G.	0.965
SFBM_0318	SFBM_0317	SFBM_0318	SFBM_0317	V-type ATP synthase subunit K; Belongs to the V-ATPase proteolipid subunit family.	V-type ATP synthase subunit I; Belongs to the V-ATPase 116 kDa subunit family.	0.999

page 1 of 5

Network Stats

number of nodes:

4

number of edges:

6

average node degree:

3

avg. local clustering coefficient:

1

expected number of edges:

3

PPI enrichment p-value:

0.0543

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:0006260

DNA replication

7 of 31

1.79

3.1

1.25e-08

GO:0009059

Macromolecule biosynthetic process

10 of 237

1.06

1.3

8.41e-08

GO:0006269

DNA replication, synthesis of RNA primer

2 of 3

2.26

1.12

0.0084

GO:0044271

Cellular nitrogen compound biosynthetic process

10 of 328

0.92

0.99

9.88e-07

GO:0034654

Nucleobase-containing compound biosynthetic process

6 of 139

1.07

0.96

0.00049

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003887

DNA-directed DNA polymerase activity

4 of 12

1.95

1.92

0.00012

GO:0140097

Catalytic activity, acting on DNA

6 of 88

1.27

1.29

0.00012

GO:0003735

Structural constituent of ribosome

4 of 52

1.32

0.93

0.0053

GO:0008408

3-5 exonuclease activity

2 of 9

1.78

0.68

0.0493

GO:0003676

Nucleic acid binding

8 of 457

0.68

0.49

0.0053

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0043232

Intracellular non-membrane-bounded organelle

7 of 96

1.29

1.64

1.82e-06

GO:0030894

Replisome

3 of 12

1.83

1.62

0.00043

GO:0009360

DNA polymerase III complex

2 of 5

2.03

1.29

0.0033

GO:0005840

Ribosome

4 of 57

1.28

1.12

0.00087

GO:1990077

Primosome complex

2 of 8

1.83

1.12

0.0059

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:593

DNA replication, and DNA repair

7 of 40

1.68

2.76

3.12e-08

CL:647

DNA polymerase complex, and Chromosomal replication initiator protein DnaA

4 of 10

2.03

2.38

1.29e-05

CL:650

DNA polymerase complex

2 of 5

2.03

0.92

0.0188

CL:107

Ribosome, and Translational elongation

4 of 68

1.2

0.79

0.0099

CL:186

Ribosome

2 of 10

1.73

0.72

0.0404

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

sdf03030

DNA replication

5 of 15

1.95

2.91

3.65e-07

sdf03440

Homologous recombination

5 of 21

1.81

2.6

7.66e-07

sdf03430

Mismatch repair

4 of 15

1.86

2.23

1.29e-05

sdf03010

Ribosome

4 of 52

1.32

1.15

0.00086

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0009360

DNA polymerase III complex

4 of 8

2.13

2.43

1.39e-05

GOCC:0005840

Ribosome

4 of 50

1.34

1.1

0.0016

GOCC:0043232

Intracellular non-membrane-bounded organelle

6 of 129

1.1

1.03

0.00028

GOCC:1990077

Primosome complex

2 of 14

1.59

0.73

0.0342

GOCC:0032991

Protein-containing complex

8 of 512

0.63

0.47

0.0033

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0235

DNA replication

6 of 15

2.03

3.69

5.56e-09

KW-0239

DNA-directed DNA polymerase

3 of 7

2.06

1.69

0.00049

KW-0639

Primosome

2 of 3

2.26

1.26

0.0045

KW-0548

Nucleotidyltransferase

4 of 41

1.42

1.22

0.0010

KW-0689

Ribosomal protein

4 of 54

1.3

1.04

0.0021

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF14579

Helix-hairpin-helix motif

2 of 2

2.43

0.78

0.0375

PF07733

Bacterial DNA polymerase III alpha NTPase domain

2 of 2

2.43

0.78

0.0375

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00481

DNA polymerase alpha chain like domain

2 of 2

2.43

1.14

0.0080

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