SDD46135.1 protein (Niabella drilacis) - STRING interaction network

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second shell of interactors

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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

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textmining

co-expression

protein homology

Your Input:

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[Homology]

Score

SDD46135.1

Urea transporter. (292 aa)

Predicted Functional Partners:

ureE

0.874

ureD

0.860

ureF

0.810

SDD46165.1

0.787

ureG

0.683

SDD46095.1

0.635

ureC

0.535

ureB

0.505

SDC02495.1

0.431

SDC96140.1

0.420

Your Current Organism:

Niabella drilacis

NCBI taxonomy Id: 1285928
Other names: CCM 8410, DSM 25811, LMG 26954, LMG:26954, N. drilacis, Niabella drilacis Glaeser et al. 2013, Niabella sp. E90, strain E90

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SDC02495.1	SDD46135.1	SAMN04487894_101125	SAMN04487894_109125	Peptidase M60, enhancin and enhancin-like.	Urea transporter.	0.431
SDC96140.1	SDD46135.1	SAMN04487894_10530	SAMN04487894_109125	Peptidase M60, enhancin and enhancin-like.	Urea transporter.	0.420
SDD46095.1	SDD46135.1	SAMN04487894_109124	SAMN04487894_109125	Cytochrome C biogenesis protein transmembrane region.	Urea transporter.	0.635
SDD46095.1	SDD46165.1	SAMN04487894_109124	SAMN04487894_109126	Cytochrome C biogenesis protein transmembrane region.	Helix-turn-helix domain-containing protein.	0.528
SDD46095.1	ureD	SAMN04487894_109124	SAMN04487894_109123	Cytochrome C biogenesis protein transmembrane region.	Urease accessory protein; Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.	0.907
SDD46095.1	ureE	SAMN04487894_109124	SAMN04487894_109120	Cytochrome C biogenesis protein transmembrane region.	Urease accessory protein; Involved in urease metallocenter assembly. Binds nickel. Probably functions as a nickel donor during metallocenter assembly. Belongs to the UreE family.	0.848
SDD46095.1	ureF	SAMN04487894_109124	SAMN04487894_109121	Cytochrome C biogenesis protein transmembrane region.	Urease accessory protein; Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.	0.794
SDD46095.1	ureG	SAMN04487894_109124	SAMN04487894_109122	Cytochrome C biogenesis protein transmembrane region.	Urease accessory protein; Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.	0.699
SDD46135.1	SDC02495.1	SAMN04487894_109125	SAMN04487894_101125	Urea transporter.	Peptidase M60, enhancin and enhancin-like.	0.431
SDD46135.1	SDC96140.1	SAMN04487894_109125	SAMN04487894_10530	Urea transporter.	Peptidase M60, enhancin and enhancin-like.	0.420
SDD46135.1	SDD46095.1	SAMN04487894_109125	SAMN04487894_109124	Urea transporter.	Cytochrome C biogenesis protein transmembrane region.	0.635
SDD46135.1	SDD46165.1	SAMN04487894_109125	SAMN04487894_109126	Urea transporter.	Helix-turn-helix domain-containing protein.	0.787
SDD46135.1	ureB	SAMN04487894_109125	SAMN04487894_109117	Urea transporter.	Urease subunit beta; Belongs to the urease beta subunit family.	0.505
SDD46135.1	ureC	SAMN04487894_109125	SAMN04487894_109118	Urea transporter.	Urease subunit alpha.	0.535
SDD46135.1	ureD	SAMN04487894_109125	SAMN04487894_109123	Urea transporter.	Urease accessory protein; Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.	0.860
SDD46135.1	ureE	SAMN04487894_109125	SAMN04487894_109120	Urea transporter.	Urease accessory protein; Involved in urease metallocenter assembly. Binds nickel. Probably functions as a nickel donor during metallocenter assembly. Belongs to the UreE family.	0.874
SDD46135.1	ureF	SAMN04487894_109125	SAMN04487894_109121	Urea transporter.	Urease accessory protein; Required for maturation of urease via the functional incorporation of the urease nickel metallocenter.	0.810
SDD46135.1	ureG	SAMN04487894_109125	SAMN04487894_109122	Urea transporter.	Urease accessory protein; Facilitates the functional incorporation of the urease nickel metallocenter. This process requires GTP hydrolysis, probably effectuated by UreG.	0.683
SDD46165.1	SDD46095.1	SAMN04487894_109126	SAMN04487894_109124	Helix-turn-helix domain-containing protein.	Cytochrome C biogenesis protein transmembrane region.	0.528
SDD46165.1	SDD46135.1	SAMN04487894_109126	SAMN04487894_109125	Helix-turn-helix domain-containing protein.	Urea transporter.	0.787

page 1 of 4

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

23

PPI enrichment p-value:

6.55e-09

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:0006351

Transcription, DNA-templated

9 of 259

1.88

4.47

5.53e-13

GO:0006366

Transcription by RNA polymerase II

5 of 82

2.12

3.28

1.37e-07

GO:0031990

mRNA export from nucleus in response to heat stress

2 of 2

3.34

2.04

0.00021

GO:0006367

Transcription initiation from RNA polymerase II promoter

3 of 37

2.25

2.01

0.00014

GO:0034402

Recruitment of 3-end processing factors to RNA polymerase II holoenzyme complex

2 of 3

3.16

1.93

0.00033

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003899

DNA-directed 5-3 RNA polymerase activity

7 of 37

2.62

6.82

2.93e-14

GO:0031369

Translation initiation factor binding

2 of 16

2.44

1.15

0.0077

GO:0003677

DNA binding

6 of 2294

0.76

0.42

0.0448

GO:1901363

Heterocyclic compound binding

10 of 7560

0.46

0.33

0.0180

GO:0097159

Organic cyclic compound binding

10 of 7587

0.46

0.33

0.0180

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005665

RNA polymerase II, core complex

8 of 18

2.99

10.15

4.24e-20

GO:0055029

Nuclear DNA-directed RNA polymerase complex

10 of 106

2.31

8.26

4.24e-20

GO:0005736

RNA polymerase I complex

4 of 14

2.79

4.44

5.02e-09

GO:0005666

RNA polymerase III complex

4 of 23

2.58

3.98

2.46e-08

GO:0005730

Nucleolus

5 of 329

1.52

1.88

9.04e-06

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:9014

RNA polymerase II, core complex, and Transcription elongation factor, TFIIS

9 of 20

2.99

11.17

3.60e-22

CL:9021

RNA polymerase II, core complex

7 of 10

3.18

9.4

3.36e-18

CL:8998

RNA Polymerase II Pre-transcription Events, and RNA Polymerase III Transcription

11 of 151

2.2

8.08

2.23e-21

CL:9026

RNA polymerase II, core complex

5 of 5

3.34

6.68

6.42e-13

CL:9230

RNA Polymerase III Transcription, and RNA Polymerase I Transcription Initiation

2 of 34

2.11

0.75

0.0406

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

nnu03020

RNA polymerase

10 of 36

2.78

12.06

3.41e-25

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-9018519

Estrogen-dependent gene expression

9 of 49

2.6

9.37

3.39e-20

MAP-77075

RNA Pol II CTD phosphorylation and interaction with CE

9 of 50

2.59

9.35

3.39e-20

MAP-72086

mRNA Capping

9 of 52

2.58

9.3

3.39e-20

MAP-6807505

RNA polymerase II transcribes snRNA genes

10 of 78

2.45

9.27

2.40e-21

MAP-113418

Formation of the Early Elongation Complex

9 of 55

2.55

9.21

3.51e-20

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0055029

Nuclear DNA-directed RNA polymerase complex

10 of 92

2.37

8.66

1.79e-20

GOCC:0005665

RNA polymerase II, core complex

4 of 7

3.1

4.81

1.50e-09

GOCC:0005736

RNA polymerase I complex

4 of 11

2.9

4.46

5.43e-09

GOCC:0000419

RNA polymerase V complex

3 of 10

2.82

3.11

1.82e-06

GOCC:0031981

Nuclear lumen

8 of 838

1.32

1.89

5.15e-08

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0240

DNA-directed RNA polymerase

10 of 47

2.67

11.08

8.31e-24

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF03871

RNA polymerase Rpb5, N-terminal domain

2 of 2

3.34

1.46

0.0024

PF01191

RNA polymerase Rpb5, C-terminal domain

2 of 2

3.34

1.46

0.0024

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR045222

DNA-directed RNA polymerase II subunit Rpb4-like

3 of 3

3.34

2.79

9.05e-06

IPR038324

Rpb4/RPC9 superfamily

3 of 4

3.21

2.79

9.05e-06

IPR006590

RNA polymerase Rpb4/RPC9, core

3 of 4

3.21

2.79

9.05e-06

IPR005574

RNA polymerase subunit Rpb4/RPC9

3 of 4

3.21

2.79

9.05e-06

IPR010997

HRDC-like superfamily

3 of 8

2.91

2.64

1.49e-05

(more ...)

Protein Domains (SMART)

domain

description

count in network

strength

signal

false discovery rate

SM00657

DNA-directed RNA-polymerase II subunit

3 of 4

3.21

3.24

1.34e-06

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