ACA1_121780 protein (Acanthamoeba castellanii)

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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second shell of interactors

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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

ACA1_121780

RNA-directed RNA polymerase. (1135 aa)

Predicted Functional Partners:

ACA1_158460

0.736

ACA1_190750

0.720

ACA1_093730

0.720

ACA1_092940

0.720

ACA1_169330

0.720

ACA1_365330

0.719

ACA1_218440

0.719

ACA1_116890

0.719

ACA1_343180

0.719

ACA1_291620

0.719

Your Current Organism:

Acanthamoeba castellanii

NCBI taxonomy Id: 1257118
Other names: A. castellanii str. Neff, Acanthamoeba castellanii Neff strain, Acanthamoeba castellanii str. Neff, Acanthamoeba castellanii strain Neff

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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
ACA1_092940	ACA1_093730	L8GIT1	L8GIK6	Uncharacterized protein.	RNA polymerase subunit.	0.999
ACA1_092940	ACA1_116890	L8GIT1	L8H6X7	Uncharacterized protein.	DNA-directed RNA polymerase II family protein.	0.998
ACA1_092940	ACA1_121780	L8GIT1	L8GF11	Uncharacterized protein.	RNA-directed RNA polymerase.	0.720
ACA1_092940	ACA1_158460	L8GIT1	L8HA21	Uncharacterized protein.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.998
ACA1_092940	ACA1_169330	L8GIT1	L8HGI6	Uncharacterized protein.	RNA polymerase Rpb5, Cterminal domain containing protein.	0.999
ACA1_092940	ACA1_190750	L8GIT1	L8GF23	Uncharacterized protein.	DNAdirected RNA polymerase II subunit RPB7, putative.	0.998
ACA1_092940	ACA1_218440	L8GIT1	L8GQD6	Uncharacterized protein.	RNA polymerase Rpb3/Rpb11 dimerization domain containing protein.	0.999
ACA1_092940	ACA1_291620	L8GIT1	L8HID4	Uncharacterized protein.	DNAdirected RNA polymerase II subunit rpb4, putative.	0.998
ACA1_092940	ACA1_343180	L8GIT1	L8H8M4	Uncharacterized protein.	RNA polymerase Rpb3/Rpb11 dimerization domain containing protein.	0.999
ACA1_092940	ACA1_365330	L8GIT1	L8GLK9	Uncharacterized protein.	DNA-directed RNA polymerases I, II, and III subunit RPABC3; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non- coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively.	0.998
ACA1_093730	ACA1_092940	L8GIK6	L8GIT1	RNA polymerase subunit.	Uncharacterized protein.	0.999
ACA1_093730	ACA1_116890	L8GIK6	L8H6X7	RNA polymerase subunit.	DNA-directed RNA polymerase II family protein.	0.999
ACA1_093730	ACA1_121780	L8GIK6	L8GF11	RNA polymerase subunit.	RNA-directed RNA polymerase.	0.720
ACA1_093730	ACA1_158460	L8GIK6	L8HA21	RNA polymerase subunit.	DNA-directed RNA polymerase subunit beta; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.	0.999
ACA1_093730	ACA1_169330	L8GIK6	L8HGI6	RNA polymerase subunit.	RNA polymerase Rpb5, Cterminal domain containing protein.	0.999
ACA1_093730	ACA1_190750	L8GIK6	L8GF23	RNA polymerase subunit.	DNAdirected RNA polymerase II subunit RPB7, putative.	0.998
ACA1_093730	ACA1_218440	L8GIK6	L8GQD6	RNA polymerase subunit.	RNA polymerase Rpb3/Rpb11 dimerization domain containing protein.	0.999
ACA1_093730	ACA1_291620	L8GIK6	L8HID4	RNA polymerase subunit.	DNAdirected RNA polymerase II subunit rpb4, putative.	0.998
ACA1_093730	ACA1_343180	L8GIK6	L8H8M4	RNA polymerase subunit.	RNA polymerase Rpb3/Rpb11 dimerization domain containing protein.	0.999
ACA1_093730	ACA1_365330	L8GIK6	L8GLK9	RNA polymerase subunit.	DNA-directed RNA polymerases I, II, and III subunit RPABC3; DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Common component of RNA polymerases I, II and III which synthesize ribosomal RNA precursors, mRNA precursors and many functional non- coding RNAs, and small RNAs, such as 5S rRNA and tRNAs, respectively.	0.999

page 1 of 6

Network Stats

number of nodes:

11

number of edges:

27

average node degree:

4.91

avg. local clustering coefficient:

0.895

expected number of edges:

11

PPI enrichment p-value:

1.9e-05

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

10 of 100

1.34

2.22

1.96e-10

GO:0009059

Macromolecule biosynthetic process

11 of 164

1.17

1.72

1.96e-10

GO:0010467

Gene expression

11 of 187

1.11

1.57

1.96e-10

GO:0044271

Cellular nitrogen compound biosynthetic process

11 of 244

1.0

1.26

1.51e-09

GO:0044238

Primary metabolic process

11 of 736

0.52

0.45

0.00011

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003735

Structural constituent of ribosome

10 of 55

1.6

3.41

7.00e-13

GO:0019843

rRNA binding

8 of 41

1.64

3.03

5.68e-10

GO:0003723

RNA binding

9 of 99

1.3

1.97

4.42e-09

GO:0070180

Large ribosomal subunit rRNA binding

2 of 2

2.34

1.08

0.0103

GO:0000049

tRNA binding

3 of 24

1.44

0.83

0.0156

(more ...)

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005840

Ribosome

10 of 57

1.59

3.45

1.16e-13

GO:0044391

Ribosomal subunit

4 of 14

1.8

2.22

9.87e-06

GO:0015934

Large ribosomal subunit

3 of 8

1.92

1.89

0.00012

GO:0032991

Protein-containing complex

5 of 143

0.89

0.69

0.0026

Reference Publications (PubMed)

publication

(year) title

count in network

strength

signal

false discovery rate

PMID:27330141

(2016) Whole genomic DNA sequencing and comparative genomic analysis of Arthrospira platensis: high genome plasticity and genetic diversity.

7 of 26

1.78

2.96

3.35e-08

PMID:28977619

(2017) The stability of an mRNA is influenced by its concentration: a potential physical mechanism to regulate gene expression.

8 of 51

1.54

2.45

3.35e-08

PMID:22043294

(2011) Gut microbiome metagenomics analysis suggests a functional model for the development of autoimmunity for type 1 diabetes.

4 of 8

2.04

1.98

0.00011

PMID:20019804

(2009) Transcriptome and proteome exploration to model translation efficiency and protein stability in Lactococcus lactis.

6 of 65

1.31

1.32

0.00015

PMID:30779773

(2019) Multiplexing polysome profiling experiments to study translation in Escherichia coli.

3 of 7

1.98

1.24

0.0040

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:95

rRNA-binding

8 of 31

1.76

3.73

1.37e-11

CL:86

Ribosome, and Translational elongation

11 of 69

1.55

3.38

1.30e-14

CL:89

Ribosome

10 of 59

1.57

3.36

2.01e-13

CL:91

Ribosome

9 of 50

1.6

3.28

4.05e-12

CL:147

Large ribosomal subunit rRNA binding, and Translation regulation

4 of 5

2.25

3.03

9.25e-07

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

llm03010

Ribosome

10 of 55

1.6

3.53

9.24e-14

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0015934

Large ribosomal subunit

5 of 10

2.04

3.23

1.01e-07

GOCC:0005840

Ribosome

8 of 45

1.59

2.87

9.60e-10

GOCC:0022625

Cytosolic large ribosomal subunit

3 of 6

2.04

1.94

0.00013

GOCC:0043229

Intracellular organelle

10 of 224

0.99

1.19

5.88e-08

GOCC:0032991

Protein-containing complex

6 of 331

0.6

0.38

0.0297

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0689

Ribosomal protein

10 of 56

1.6

3.45

2.01e-13

KW-0699

rRNA-binding

8 of 39

1.66

3.24

9.68e-11

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