GCA_002000055_01833 protein (Marinicella sediminis)

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

GCA_002000055_01833

Unannotated protein. (288 aa)

Predicted Functional Partners:

GCA_002000055_02894

0.909

GCA_002000055_01834

0.876

GCA_002000055_01832

0.797

GCA_002000055_01831

0.783

GCA_002000055_01830

0.752

GCA_002000055_01152

0.678

GCA_002000055_00525

0.621

GCA_002000055_02283

0.593

GCA_002000055_02891

0.584

GCA_002000055_00366

0.554

Your Current Organism:

Marinicella sediminis

NCBI taxonomy Id: 1792834
Other names: KCTC 42953, M. sediminis, MCCC 1H00149, Marinicella sp. F2, strain F2

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

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

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... 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 annotation	node2 annotation	score
GCA_002000055_00366	GCA_002000055_01152	Unannotated protein.	Unannotated protein.	0.521
GCA_002000055_00366	GCA_002000055_01833	Unannotated protein.	Unannotated protein.	0.554
GCA_002000055_00366	GCA_002000055_02283	Unannotated protein.	Unannotated protein.	0.403
GCA_002000055_00525	GCA_002000055_01833	Unannotated protein.	Unannotated protein.	0.621
GCA_002000055_00525	GCA_002000055_01834	Unannotated protein.	Unannotated protein.	0.808
GCA_002000055_00525	GCA_002000055_02891	Unannotated protein.	Unannotated protein.	0.668
GCA_002000055_00525	GCA_002000055_02894	Unannotated protein.	Unannotated protein.	0.713
GCA_002000055_01152	GCA_002000055_00366	Unannotated protein.	Unannotated protein.	0.521
GCA_002000055_01152	GCA_002000055_01833	Unannotated protein.	Unannotated protein.	0.678
GCA_002000055_01152	GCA_002000055_01834	Unannotated protein.	Unannotated protein.	0.521
GCA_002000055_01830	GCA_002000055_01831	Unannotated protein.	Unannotated protein.	0.773
GCA_002000055_01830	GCA_002000055_01832	Unannotated protein.	Unannotated protein.	0.752
GCA_002000055_01830	GCA_002000055_01833	Unannotated protein.	Unannotated protein.	0.752
GCA_002000055_01830	GCA_002000055_01834	Unannotated protein.	Unannotated protein.	0.534
GCA_002000055_01831	GCA_002000055_01830	Unannotated protein.	Unannotated protein.	0.773
GCA_002000055_01831	GCA_002000055_01832	Unannotated protein.	Unannotated protein.	0.996
GCA_002000055_01831	GCA_002000055_01833	Unannotated protein.	Unannotated protein.	0.783
GCA_002000055_01831	GCA_002000055_01834	Unannotated protein.	Unannotated protein.	0.585
GCA_002000055_01832	GCA_002000055_01830	Unannotated protein.	Unannotated protein.	0.752
GCA_002000055_01832	GCA_002000055_01831	Unannotated protein.	Unannotated protein.	0.996

page 1 of 3

Network Stats

number of nodes:

11

number of edges:

55

average node degree:

10

avg. local clustering coefficient:

1

expected number of edges:

25

PPI enrichment p-value:

7.3e-08

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:0006412

Translation

11 of 92

1.32

2.29

4.91e-12

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0019843

rRNA binding

10 of 37

1.68

3.81

1.21e-13

GO:0003735

Structural constituent of ribosome

10 of 49

1.56

3.21

7.30e-13

GO:0000049

tRNA binding

5 of 19

1.67

2.13

6.14e-06

GO:0003676

Nucleic acid binding

11 of 225

0.93

1.11

6.14e-09

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0044391

Ribosomal subunit

6 of 12

1.94

3.67

2.03e-09

GO:0005840

Ribosome

10 of 53

1.52

3.08

7.12e-13

GO:0015935

Small ribosomal subunit

3 of 6

1.94

1.87

0.00015

GO:0015934

Large ribosomal subunit

3 of 6

1.94

1.87

0.00015

GO:0005622

Intracellular anatomical structure

11 of 682

0.45

0.39

0.00015

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:64

Ribosome, and Translational elongation

11 of 72

1.43

2.78

1.87e-13

CL:68

Ribosome, and Elongation factor

9 of 61

1.41

2.45

1.49e-10

CL:72

Ribosome

5 of 28

1.5

1.8

1.36e-05

CL:154

rRNA binding, and Elongation factor Tu GTP binding domain

4 of 18

1.59

1.68

9.76e-05

CL:75

Ribosome

4 of 22

1.51

1.5

0.00019

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03010

Ribosome

10 of 52

1.53

3.13

5.28e-13

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0044391

Ribosomal subunit

6 of 15

1.85

3.0

6.83e-08

GOCC:0015934

Large ribosomal subunit

4 of 6

2.07

2.65

3.45e-06

GOCC:0005840

Ribosome

7 of 36

1.53

2.37

6.83e-08

GOCC:0022626

Cytosolic ribosome

4 of 10

1.85

2.23

1.26e-05

GOCC:0043229

Intracellular organelle

10 of 171

1.01

1.22

6.83e-08

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0689

Ribosomal protein

10 of 52

1.53

3.1

8.99e-13

KW-0687

Ribonucleoprotein

10 of 52

1.53

3.1

8.99e-13

KW-0820

tRNA-binding

4 of 10

1.85

2.17

1.77e-05

KW-0699

rRNA-binding

6 of 31

1.53

2.15

7.32e-07

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