SeMB42_g05467 protein (Synchytrium endobioticum)

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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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

SeMB42_g05467

WD_REPEATS_REGION domain-containing protein. (520 aa)

Predicted Functional Partners:

SeMB42_g05354

0.986

SeMB42_g02012

0.950

SeMB42_g07851

0.917

SeMB42_g07607

0.906

SeMB42_g00127

0.906

SeMB42_g00618

0.862

SeMB42_g03910

0.848

SeMB42_g03157

0.840

SeMB42_g06097

0.828

SeMB42_g03189

0.808

Your Current Organism:

Synchytrium endobioticum

NCBI taxonomy Id: 286115
Other names: S. endobioticum

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... functional annotations:

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Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
SeMB42_g00127	SeMB42_g00618	A0A507DUJ8	A0A507CZQ7	Robl_LC7 domain-containing protein.	Uncharacterized protein.	0.853
SeMB42_g00127	SeMB42_g02012	A0A507DUJ8	A0A507DHX4	Robl_LC7 domain-containing protein.	Uncharacterized protein.	0.881
SeMB42_g00127	SeMB42_g03157	A0A507DUJ8	A0A507D925	Robl_LC7 domain-containing protein.	CAP-Gly domain-containing protein.	0.663
SeMB42_g00127	SeMB42_g03189	A0A507DUJ8	A0A507DAK7	Robl_LC7 domain-containing protein.	Uncharacterized protein.	0.849
SeMB42_g00127	SeMB42_g03910	A0A507DUJ8	A0A507D9R3	Robl_LC7 domain-containing protein.	Uncharacterized protein.	0.963
SeMB42_g00127	SeMB42_g05354	A0A507DUJ8	A0A507CS70	Robl_LC7 domain-containing protein.	Uncharacterized protein.	0.907
SeMB42_g00127	SeMB42_g05467	A0A507DUJ8	A0A507CRL8	Robl_LC7 domain-containing protein.	WD_REPEATS_REGION domain-containing protein.	0.906
SeMB42_g00127	SeMB42_g06097	A0A507DUJ8	A0A507CFA6	Robl_LC7 domain-containing protein.	Uncharacterized protein.	0.598
SeMB42_g00127	SeMB42_g07851	A0A507DUJ8	A0A507BYP5	Robl_LC7 domain-containing protein.	Dynein light chain; Acts as one of several non-catalytic accessory components of the cytoplasmic dynein complex that are thought to be involved in linking dynein to cargos and to adapter proteins that regulate dynein function. Cytoplasmic dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. May play a role in changing or maintaining the spatial distribution of cytoskeletal structures.	0.888
SeMB42_g00618	SeMB42_g00127	A0A507CZQ7	A0A507DUJ8	Uncharacterized protein.	Robl_LC7 domain-containing protein.	0.853
SeMB42_g00618	SeMB42_g02012	A0A507CZQ7	A0A507DHX4	Uncharacterized protein.	Uncharacterized protein.	0.873
SeMB42_g00618	SeMB42_g03910	A0A507CZQ7	A0A507D9R3	Uncharacterized protein.	Uncharacterized protein.	0.929
SeMB42_g00618	SeMB42_g05354	A0A507CZQ7	A0A507CS70	Uncharacterized protein.	Uncharacterized protein.	0.858
SeMB42_g00618	SeMB42_g05467	A0A507CZQ7	A0A507CRL8	Uncharacterized protein.	WD_REPEATS_REGION domain-containing protein.	0.862
SeMB42_g00618	SeMB42_g07607	A0A507CZQ7	A0A507BZF3	Uncharacterized protein.	Dynein light chain roadblock.	0.853
SeMB42_g00618	SeMB42_g07851	A0A507CZQ7	A0A507BYP5	Uncharacterized protein.	Dynein light chain; Acts as one of several non-catalytic accessory components of the cytoplasmic dynein complex that are thought to be involved in linking dynein to cargos and to adapter proteins that regulate dynein function. Cytoplasmic dynein acts as a motor for the intracellular retrograde motility of vesicles and organelles along microtubules. May play a role in changing or maintaining the spatial distribution of cytoskeletal structures.	0.823
SeMB42_g02012	SeMB42_g00127	A0A507DHX4	A0A507DUJ8	Uncharacterized protein.	Robl_LC7 domain-containing protein.	0.881
SeMB42_g02012	SeMB42_g00618	A0A507DHX4	A0A507CZQ7	Uncharacterized protein.	Uncharacterized protein.	0.873
SeMB42_g02012	SeMB42_g03189	A0A507DHX4	A0A507DAK7	Uncharacterized protein.	Uncharacterized protein.	0.896
SeMB42_g02012	SeMB42_g03910	A0A507DHX4	A0A507D9R3	Uncharacterized protein.	Uncharacterized protein.	0.863

page 1 of 5

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

26

PPI enrichment p-value:

3.38e-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:0006366

Transcription by RNA polymerase II

10 of 85

2.23

7.43

1.30e-18

GO:0001172

Transcription, RNA-templated

4 of 9

2.81

4.1

2.31e-08

GO:0098781

ncRNA transcription

4 of 14

2.62

3.74

8.55e-08

GO:0006360

Transcription by RNA polymerase I

4 of 20

2.46

3.46

2.12e-07

GO:0006383

Transcription by RNA polymerase III

4 of 21

2.44

3.43

2.30e-07

(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 24

2.63

6.87

2.51e-14

GO:0031369

Translation initiation factor binding

2 of 9

2.51

1.41

0.0026

GO:0003677

DNA binding

8 of 860

1.13

1.33

2.30e-06

GO:0003676

Nucleic acid binding

9 of 1578

0.92

0.94

7.20e-06

GO:1901363

Heterocyclic compound binding

10 of 3180

0.66

0.57

0.00014

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005665

RNA polymerase II, core complex

10 of 12

3.08

13.41

1.95e-26

GO:0005736

RNA polymerase I complex

4 of 12

2.68

4.21

1.11e-08

GO:0005666

RNA polymerase III complex

4 of 18

2.51

3.83

4.20e-08

GO:0005730

Nucleolus

5 of 273

1.42

1.64

2.40e-05

GO:0000932

P-body

2 of 30

1.98

1.14

0.0065

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:7704

RNA polymerase II, core complex

9 of 10

3.12

11.75

5.86e-23

CL:7706

RNA polymerase II, core complex

5 of 5

3.16

6.39

1.79e-12

CL:7670

Mixed, incl. RNA Polymerase II Pre-transcription Events, and RNA Polymerase III Transcription

11 of 178

1.95

6.21

1.71e-19

CL:7673

Mixed, incl. RNA Polymerase II Pre-transcription Events, and Tyrosinase activity

10 of 143

2.01

6.13

8.72e-18

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03020

RNA polymerase

10 of 40

2.56

10.33

5.92e-23

Reactome Pathways

pathway

description

count in network

strength

signal

false discovery rate

MAP-9018519

Estrogen-dependent gene expression

10 of 32

2.66

10.71

5.20e-23

MAP-77075

RNA Pol II CTD phosphorylation and interaction with CE

10 of 35

2.62

10.56

5.64e-23

MAP-72086

mRNA Capping

10 of 37

2.59

10.45

6.10e-23

MAP-113418

Formation of the Early Elongation Complex

10 of 39

2.57

10.34

7.26e-23

MAP-8939211

ESR-mediated signaling

10 of 43

2.53

10.06

1.38e-22

(more ...)

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0000428

DNA-directed RNA polymerase complex

8 of 81

2.16

5.58

1.06e-13

GOCC:0005665

RNA polymerase II, core complex

4 of 4

3.16

4.76

2.03e-09

GOCC:0055029

Nuclear DNA-directed RNA polymerase complex

5 of 59

2.09

3.37

6.38e-08

GOCC:0005736

RNA polymerase I complex

2 of 5

2.76

1.68

0.00086

GOCC:0031981

Nuclear lumen

5 of 561

1.11

0.9

0.0018

(more ...)

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR036603

RNA polymerase, RBP11-like subunit

2 of 4

2.86

0.96

0.0186

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