dcuA protein (Aeromonas salmonicida) - STRING interaction network

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

dcuA

Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family. (439 aa)

Predicted Functional Partners:

aspA

0.845

fumB

0.717

Y825_AERS4

0.534

ompC

0.495

ansB

0.451

dcuC

0.435

GCA_000820065_00346

0.402

Your Current Organism:

Aeromonas salmonicida

NCBI taxonomy Id: 29491
Other names: A. salmonicida subsp. salmonicida, Aeromonas salmonicida salmonicida, Aeromonas salmonicida subsp. salmonicida

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

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

... functional annotations:

download

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
GCA_000820065_00346	dcuA	GCA_000820065_00346	GCA_000820065_04363	Unannotated protein.	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	0.402
GCA_000820065_00346	dcuC	GCA_000820065_00346	GCA_000820065_01561	Unannotated protein.	Unannotated protein.	0.404
Y825_AERS4	dcuA	GCA_000820065_03829	GCA_000820065_04363	Unannotated protein.	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	0.534
ansB	aspA	GCA_000820065_02931	GCA_000820065_04364	Unannotated protein; Belongs to the asparaginase 1 family.	Unannotated protein.	0.988
ansB	dcuA	GCA_000820065_02931	GCA_000820065_04363	Unannotated protein; Belongs to the asparaginase 1 family.	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	0.451
aspA	ansB	GCA_000820065_04364	GCA_000820065_02931	Unannotated protein.	Unannotated protein; Belongs to the asparaginase 1 family.	0.988
aspA	dcuA	GCA_000820065_04364	GCA_000820065_04363	Unannotated protein.	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	0.845
aspA	fumB	GCA_000820065_04364	GCA_000820065_01636	Unannotated protein.	Unannotated protein; Catalyzes the reversible hydration of fumarate to (S)-malate. Belongs to the class-I fumarase family.	0.888
dcuA	GCA_000820065_00346	GCA_000820065_04363	GCA_000820065_00346	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	Unannotated protein.	0.402
dcuA	Y825_AERS4	GCA_000820065_04363	GCA_000820065_03829	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	Unannotated protein.	0.534
dcuA	ansB	GCA_000820065_04363	GCA_000820065_02931	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	Unannotated protein; Belongs to the asparaginase 1 family.	0.451
dcuA	aspA	GCA_000820065_04363	GCA_000820065_04364	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	Unannotated protein.	0.845
dcuA	dcuC	GCA_000820065_04363	GCA_000820065_01561	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	Unannotated protein.	0.435
dcuA	fumB	GCA_000820065_04363	GCA_000820065_01636	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	Unannotated protein; Catalyzes the reversible hydration of fumarate to (S)-malate. Belongs to the class-I fumarase family.	0.717
dcuA	ompC	GCA_000820065_04363	GCA_000820065_04362	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	Unannotated protein.	0.495
dcuC	GCA_000820065_00346	GCA_000820065_01561	GCA_000820065_00346	Unannotated protein.	Unannotated protein.	0.404
dcuC	dcuA	GCA_000820065_01561	GCA_000820065_04363	Unannotated protein.	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	0.435
fumB	aspA	GCA_000820065_01636	GCA_000820065_04364	Unannotated protein; Catalyzes the reversible hydration of fumarate to (S)-malate. Belongs to the class-I fumarase family.	Unannotated protein.	0.888
fumB	dcuA	GCA_000820065_01636	GCA_000820065_04363	Unannotated protein; Catalyzes the reversible hydration of fumarate to (S)-malate. Belongs to the class-I fumarase family.	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	0.717
ompC	dcuA	GCA_000820065_04362	GCA_000820065_04363	Unannotated protein.	Unannotated protein; Responsible for the transport of C4-dicarboxylates from the periplasm across the inner membrane; Belongs to the DcuA/DcuB transporter (TC 2.A.13.1) family.	0.495

Network Stats

number of nodes:

11

number of edges:

35

average node degree:

6.36

avg. local clustering coefficient:

0.837

expected number of edges:

15

PPI enrichment p-value:

9.99e-06

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:0022900

Electron transport chain

8 of 50

1.58

2.71

5.27e-09

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005506

Iron ion binding

5 of 18

1.82

2.45

2.53e-06

GO:0009055

Electron transfer activity

5 of 26

1.66

2.07

9.43e-06

GO:0008137

NADH dehydrogenase (ubiquinone) activity

3 of 8

1.95

1.61

0.00059

GO:0051536

Iron-sulfur cluster binding

8 of 111

1.24

1.56

1.06e-06

GO:0008901

Ferredoxin hydrogenase activity

2 of 2

2.38

1.36

0.0030

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0045272

Plasma membrane respiratory chain complex I

2 of 2

2.38

1.12

0.0088

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:1644

Mixed, incl. Rubredoxin, and 3Fe-4S ferredoxin

5 of 5

2.38

3.66

6.26e-08

CL:980

Oxidative phosphorylation

5 of 17

1.85

2.51

2.13e-06

CL:983

Iron hydrogenase, and Respirasome

4 of 8

2.08

2.43

1.15e-05

CL:940

Mixed, incl. Citrate cycle (TCA cycle), and Oxidative phosphorylation

6 of 73

1.3

1.45

2.80e-05

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00190

Oxidative phosphorylation

5 of 30

1.6

1.94

1.38e-05

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0045271

Respiratory chain complex I

4 of 8

2.08

2.35

1.71e-05

GOCC:0045272

Plasma membrane respiratory chain complex I

2 of 6

1.9

0.97

0.0135

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0408

Iron

4 of 45

1.33

0.93

0.0057

KW-0411

Iron-sulfur

3 of 35

1.31

0.65

0.0379

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF01257

Thioredoxin-like [2Fe-2S] ferredoxin

3 of 3

2.38

1.88

0.00029

PF00037

4Fe-4S binding domain

4 of 16

1.78

1.65

0.00029

PF13510

2Fe-2S iron-sulfur cluster binding domain

2 of 2

2.38

1.04

0.0121

PF02906

Iron only hydrogenase large subunit, C-terminal domain

2 of 5

1.98

0.8

0.0315

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR017896

4Fe-4S ferredoxin-type, iron-sulphur binding domain

6 of 34

1.63

2.13

3.71e-06

IPR017900

4Fe-4S ferredoxin, iron-sulphur binding, conserved site

5 of 30

1.6

1.73

6.90e-05

IPR036249

Thioredoxin-like superfamily

3 of 12

1.78

1.04

0.0083

IPR036991

Iron hydrogenase, small subunit superfamily

2 of 2

2.38

0.88

0.0248

IPR036010

2Fe-2S ferredoxin-like superfamily

2 of 2

2.38

0.88

0.0248

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00929

NADH-ubiquinone oxidoreductase-G iron-sulfur binding region

2 of 2

2.38

1.11

0.0092

SM00902

Iron hydrogenase small subunit

2 of 2

2.38

1.11

0.0092

Enrichment display settings

Enrichment analysis is still ongoing, please wait ...

Server load: low (26%) [HD]

Permalink

Network

Neighborhood

Databases

Fusion

Textmining

Cooccurrence

Experiments

Coexpression

© STRING Consortium 2024

Credits

Access

Info

About