GCA_000934765_02242 protein (Thiomicrospira microaerophila)

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_000934765_02242

Unannotated protein. (325 aa)

Predicted Functional Partners:

GCA_000934765_01029

0.983

GCA_000934765_00608

0.981

GCA_000934765_01026

0.941

GCA_000934765_02241

0.927

GCA_000934765_00524

0.926

GCA_000934765_00523

0.923

GCA_000934765_00052

0.922

GCA_000934765_01028

0.919

GCA_000934765_00522

0.906

GCA_000934765_02240

0.847

Your Current Organism:

Thiomicrospira microaerophila

NCBI taxonomy Id: 406020
Other names: DSM 17327, T. microaerophila, Thioalkalimicrobium microaerophilum, Thioalkalimicrobium microaerophilum Sorokin et al. 2007, Thiomicrospira microaerophila (Sorokin et al. 2007) Boden et al. 2017, UNIQEM U242, gamma proteobacterium ASL8.2, strain ASL8-2

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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

... protein annotations:

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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 annotation	node2 annotation	score
GCA_000934765_00052	GCA_000934765_00522	Unannotated protein.	Unannotated protein.	0.645
GCA_000934765_00052	GCA_000934765_00523	Unannotated protein.	Unannotated protein.	0.645
GCA_000934765_00052	GCA_000934765_00524	Unannotated protein.	Unannotated protein.	0.863
GCA_000934765_00052	GCA_000934765_00608	Unannotated protein.	Unannotated protein.	0.968
GCA_000934765_00052	GCA_000934765_01026	Unannotated protein.	Unannotated protein.	0.835
GCA_000934765_00052	GCA_000934765_01028	Unannotated protein.	Unannotated protein.	0.968
GCA_000934765_00052	GCA_000934765_01029	Unannotated protein.	Unannotated protein.	0.970
GCA_000934765_00052	GCA_000934765_02241	Unannotated protein.	Unannotated protein.	0.574
GCA_000934765_00052	GCA_000934765_02242	Unannotated protein.	Unannotated protein.	0.922
GCA_000934765_00522	GCA_000934765_00052	Unannotated protein.	Unannotated protein.	0.645
GCA_000934765_00522	GCA_000934765_00523	Unannotated protein.	Unannotated protein.	0.999
GCA_000934765_00522	GCA_000934765_00524	Unannotated protein.	Unannotated protein.	0.997
GCA_000934765_00522	GCA_000934765_00608	Unannotated protein.	Unannotated protein.	0.923
GCA_000934765_00522	GCA_000934765_01026	Unannotated protein.	Unannotated protein.	0.999
GCA_000934765_00522	GCA_000934765_01028	Unannotated protein.	Unannotated protein.	0.979
GCA_000934765_00522	GCA_000934765_01029	Unannotated protein.	Unannotated protein.	0.934
GCA_000934765_00522	GCA_000934765_02242	Unannotated protein.	Unannotated protein.	0.906
GCA_000934765_00523	GCA_000934765_00052	Unannotated protein.	Unannotated protein.	0.645
GCA_000934765_00523	GCA_000934765_00522	Unannotated protein.	Unannotated protein.	0.999
GCA_000934765_00523	GCA_000934765_00524	Unannotated protein.	Unannotated protein.	0.999

page 1 of 4

Network Stats

number of nodes:

5

number of edges:

6

average node degree:

2.4

avg. local clustering coefficient:

0.8

expected number of edges:

4

PPI enrichment p-value:

0.219

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:0006412

Translation

8 of 110

1.32

1.82

2.24e-07

GO:0010467

Gene expression

10 of 199

1.16

1.59

1.32e-08

GO:0009059

Macromolecule biosynthetic process

9 of 279

0.97

1.05

2.54e-06

GO:0044271

Cellular nitrogen compound biosynthetic process

9 of 289

0.96

1.02

3.02e-06

GO:0034641

Cellular nitrogen compound metabolic process

10 of 582

0.7

0.63

4.47e-05

(more ...)

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0019843

rRNA binding

7 of 43

1.67

2.77

2.61e-08

GO:0003735

Structural constituent of ribosome

7 of 55

1.57

2.49

4.22e-08

GO:0003723

RNA binding

8 of 95

1.39

2.07

3.76e-08

GO:0003676

Nucleic acid binding

9 of 357

0.86

0.85

1.53e-05

GO:0005488

Binding

10 of 1071

0.43

0.33

0.0101

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005840

Ribosome

7 of 60

1.53

2.4

4.38e-08

GO:0005622

Intracellular anatomical structure

10 of 961

0.48

0.39

0.00094

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:106

Ribosome, and Translation regulator activity

11 of 109

1.47

2.95

9.64e-14

CL:136

rRNA-binding

4 of 10

2.06

2.64

3.41e-06

CL:128

Structural molecule activity

7 of 53

1.58

2.62

1.38e-08

CL:113

Ribosome, and Translation regulator activity

8 of 87

1.43

2.27

7.24e-09

CL:314

Mixed, incl. tRNA pseudouridine synthesis, and Ribosomal small subunit binding

3 of 5

2.24

2.18

6.15e-05

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03010

Ribosome

7 of 57

1.55

2.47

3.43e-08

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005840

Ribosome

4 of 38

1.48

1.18

0.0018

GOCC:0043229

Intracellular organelle

7 of 272

0.87

0.69

0.0018

GOCC:0005622

Intracellular

9 of 998

0.42

0.29

0.0321

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0699

rRNA-binding

7 of 39

1.72

3.13

2.15e-09

KW-0694

RNA-binding

8 of 61

1.58

2.84

8.33e-10

KW-0689

Ribosomal protein

7 of 61

1.52

2.42

2.53e-08

KW-0820

tRNA-binding

2 of 11

1.72

0.79

0.0281

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