GCA_000797495_00496 protein (Robinsoniella peoriensis)

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_000797495_00496

Unannotated protein. (894 aa)

Predicted Functional Partners:

cgkA_5

0.792

spoIIIE

0.653

GCA_000797495_00495

0.640

GCA_000797495_03533

0.633

GCA_000797495_01903

0.613

bglX_3

0.598

rhgT

0.561

GCA_000797495_01179

0.540

GCA_000797495_03360

0.539

GCA_000797495_04598

0.537

Your Current Organism:

Robinsoniella peoriensis

NCBI taxonomy Id: 180332
Other names: CCUG 48729, Clostridium sp. CCUG 52336, NRRL B-23985, R. peoriensis, Robinsoniella peoriensis Cotta et al. 2009, strain PPC31, swine fecal bacterium FPC47, swine fecal bacterium FPC50, swine manure pit bacterium PPC108, swine manure pit bacterium PPC31, swine manure pit bacterium PPC37, swine manure pit bacterium PPC44

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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 accession	node2 accession	node1 annotation	node2 annotation	score
GCA_000797495_00495	GCA_000797495_00496	GCA_000797495_00495	GCA_000797495_00496	Unannotated protein.	Unannotated protein.	0.640
GCA_000797495_00495	rhgT	GCA_000797495_00495	GCA_000797495_03264	Unannotated protein.	Unannotated protein.	0.480
GCA_000797495_00496	GCA_000797495_00495	GCA_000797495_00496	GCA_000797495_00495	Unannotated protein.	Unannotated protein.	0.640
GCA_000797495_00496	GCA_000797495_01179	GCA_000797495_00496	GCA_000797495_01179	Unannotated protein.	Unannotated protein.	0.540
GCA_000797495_00496	GCA_000797495_01903	GCA_000797495_00496	GCA_000797495_01903	Unannotated protein.	Unannotated protein.	0.613
GCA_000797495_00496	GCA_000797495_03360	GCA_000797495_00496	GCA_000797495_03360	Unannotated protein.	Unannotated protein.	0.539
GCA_000797495_00496	GCA_000797495_03533	GCA_000797495_00496	GCA_000797495_03533	Unannotated protein.	Unannotated protein.	0.633
GCA_000797495_00496	GCA_000797495_04598	GCA_000797495_00496	GCA_000797495_04598	Unannotated protein.	Unannotated protein.	0.537
GCA_000797495_00496	bglX_3	GCA_000797495_00496	GCA_000797495_00497	Unannotated protein.	Unannotated protein; Belongs to the glycosyl hydrolase 3 family.	0.598
GCA_000797495_00496	cgkA_5	GCA_000797495_00496	GCA_000797495_00875	Unannotated protein.	Unannotated protein.	0.792
GCA_000797495_00496	rhgT	GCA_000797495_00496	GCA_000797495_03264	Unannotated protein.	Unannotated protein.	0.561
GCA_000797495_00496	spoIIIE	GCA_000797495_00496	GCA_000797495_05476	Unannotated protein.	Unannotated protein.	0.653
GCA_000797495_01179	GCA_000797495_00496	GCA_000797495_01179	GCA_000797495_00496	Unannotated protein.	Unannotated protein.	0.540
GCA_000797495_01903	GCA_000797495_00496	GCA_000797495_01903	GCA_000797495_00496	Unannotated protein.	Unannotated protein.	0.613
GCA_000797495_01903	GCA_000797495_03533	GCA_000797495_01903	GCA_000797495_03533	Unannotated protein.	Unannotated protein.	0.755
GCA_000797495_01903	cgkA_5	GCA_000797495_01903	GCA_000797495_00875	Unannotated protein.	Unannotated protein.	0.661
GCA_000797495_03360	GCA_000797495_00496	GCA_000797495_03360	GCA_000797495_00496	Unannotated protein.	Unannotated protein.	0.539
GCA_000797495_03360	GCA_000797495_03533	GCA_000797495_03360	GCA_000797495_03533	Unannotated protein.	Unannotated protein.	0.755
GCA_000797495_03360	cgkA_5	GCA_000797495_03360	GCA_000797495_00875	Unannotated protein.	Unannotated protein.	0.702
GCA_000797495_03533	GCA_000797495_00496	GCA_000797495_03533	GCA_000797495_00496	Unannotated protein.	Unannotated protein.	0.633

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Network Stats

number of nodes:

11

number of edges:

38

average node degree:

6.91

avg. local clustering coefficient:

0.649

expected number of edges:

11

PPI enrichment p-value:

1.6e-10

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 116

1.35

2.24

2.26e-10

GO:0010467

Gene expression

11 of 203

1.15

1.66

2.26e-10

GO:0009059

Macromolecule biosynthetic process

11 of 227

1.1

1.54

2.26e-10

GO:0044271

Cellular nitrogen compound biosynthetic process

11 of 354

0.91

1.05

1.55e-08

GO:0044238

Primary metabolic process

11 of 1054

0.44

0.36

0.0010

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0003735

Structural constituent of ribosome

10 of 57

1.66

3.72

1.68e-13

GO:0019843

rRNA binding

5 of 41

1.5

1.61

8.00e-05

GO:0003723

RNA binding

6 of 91

1.24

1.28

8.44e-05

GO:0003676

Nucleic acid binding

7 of 415

0.64

0.39

0.0358

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0005840

Ribosome

10 of 60

1.64

3.71

5.03e-14

GO:0015935

Small ribosomal subunit

2 of 6

1.94

1.09

0.0077

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:1083

Mixed, incl. Small ribosomal subunit, and Ribosomal protein L7/L12, C-terminal/adaptor protein ClpS-like

6 of 10

2.19

4.53

1.70e-10

CL:1043

Structural constituent of ribosome

11 of 56

1.71

4.35

3.06e-16

CL:1044

Structural constituent of ribosome

8 of 44

1.68

3.38

3.99e-11

CL:1045

Structural constituent of ribosome

7 of 37

1.69

3.12

1.30e-09

CL:1132

rRNA-binding

3 of 11

1.85

1.62

0.00045

(more ...)

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map03010

Ribosome

10 of 60

1.64

3.71

4.67e-14

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0005840

Ribosome

9 of 48

1.69

3.62

3.59e-12

GOCC:0015935

Small ribosomal subunit

4 of 12

1.94

2.36

9.51e-06

GOCC:0022627

Cytosolic small ribosomal subunit

3 of 10

1.89

1.68

0.00036

GOCC:0043229

Intracellular organelle

10 of 311

0.92

1.04

1.79e-07

GOCC:0005622

Intracellular

11 of 1193

0.38

0.32

0.0018

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0689

Ribosomal protein

10 of 58

1.65

3.76

6.24e-14

KW-0699

rRNA-binding

5 of 38

1.54

1.82

1.79e-05

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