GCA_000172155_03419 protein (Verrucomicrobium spinosum)

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_000172155_03419

Unannotated protein. (303 aa)

Predicted Functional Partners:

GCA_000172155_01034

0.765

GCA_000172155_05685

0.765

GCA_000172155_03134

0.726

GCA_000172155_00945

0.698

GCA_000172155_03418

0.697

GCA_000172155_04650

0.691

GCA_000172155_06096

0.687

GCA_000172155_02904

0.684

GCA_000172155_03417

0.674

GCA_000172155_03131

0.665

Your Current Organism:

Verrucomicrobium spinosum

NCBI taxonomy Id: 240016
Other names: V. spinosum DSM 4136 = JCM 18804, Verrucomicrobium spinosum ATCC 43997, Verrucomicrobium spinosum DSM 4136, Verrucomicrobium spinosum DSM 4136 = JCM 18804, Verrucomicrobium spinosum JCM 18804, Verrucomicrobium spinosum JCM 18804 = DSM 4136

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... functional annotations:

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Browse interactions in tabular form:

node1	node2	node1 annotation	node2 annotation	score
GCA_000172155_00945	GCA_000172155_01034	Unannotated protein.	Unannotated protein.	0.731
GCA_000172155_00945	GCA_000172155_02904	Unannotated protein.	Unannotated protein.	0.437
GCA_000172155_00945	GCA_000172155_03131	Unannotated protein.	Unannotated protein.	0.418
GCA_000172155_00945	GCA_000172155_03134	Unannotated protein.	Unannotated protein.	0.667
GCA_000172155_00945	GCA_000172155_03419	Unannotated protein.	Unannotated protein.	0.698
GCA_000172155_00945	GCA_000172155_04650	Unannotated protein.	Unannotated protein.	0.655
GCA_000172155_00945	GCA_000172155_06096	Unannotated protein.	Unannotated protein.	0.510
GCA_000172155_01034	GCA_000172155_00945	Unannotated protein.	Unannotated protein.	0.731
GCA_000172155_01034	GCA_000172155_02904	Unannotated protein.	Unannotated protein.	0.675
GCA_000172155_01034	GCA_000172155_03131	Unannotated protein.	Unannotated protein.	0.579
GCA_000172155_01034	GCA_000172155_03134	Unannotated protein.	Unannotated protein.	0.765
GCA_000172155_01034	GCA_000172155_03419	Unannotated protein.	Unannotated protein.	0.765
GCA_000172155_01034	GCA_000172155_04650	Unannotated protein.	Unannotated protein.	0.782
GCA_000172155_01034	GCA_000172155_06096	Unannotated protein.	Unannotated protein.	0.688
GCA_000172155_02904	GCA_000172155_00945	Unannotated protein.	Unannotated protein.	0.437
GCA_000172155_02904	GCA_000172155_01034	Unannotated protein.	Unannotated protein.	0.675
GCA_000172155_02904	GCA_000172155_03131	Unannotated protein.	Unannotated protein.	0.572
GCA_000172155_02904	GCA_000172155_03134	Unannotated protein.	Unannotated protein.	0.449
GCA_000172155_02904	GCA_000172155_03419	Unannotated protein.	Unannotated protein.	0.684
GCA_000172155_02904	GCA_000172155_04650	Unannotated protein.	Unannotated protein.	0.529

page 1 of 4

Network Stats

number of nodes:

11

number of edges:

37

average node degree:

6.73

avg. local clustering coefficient:

0.805

expected number of edges:

12

PPI enrichment p-value:

1.44e-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:0000271

Polysaccharide biosynthetic process

6 of 58

1.32

1.38

8.66e-05

GO:0009059

Macromolecule biosynthetic process

9 of 230

0.9

0.85

7.05e-05

Molecular Function (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016740

Transferase activity

9 of 397

0.66

0.49

0.0041

Cellular Component (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:0016020

Membrane

9 of 617

0.47

0.31

0.0342

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:1869

Bacterial sugar transferase, and NUBPL iron-transfer P-loop NTPase

4 of 11

1.86

2.07

3.46e-05

CL:1871

Bacterial sugar transferase, and NUBPL iron-transfer P-loop NTPase

3 of 6

2.0

1.75

0.00033

CL:1863

Mixed, incl. O-Antigen nucleotide sugar biosynthesis, and Bacterial sugar transferase

6 of 58

1.32

1.5

2.23e-05

CL:1864

Mixed, incl. O-Antigen nucleotide sugar biosynthesis, and Bacterial sugar transferase

5 of 45

1.35

1.41

9.97e-05

CL:1859

Carbohydrate metabolic process, and Transferase

9 of 156

1.06

1.23

1.29e-06

(more ...)

Annotated Keywords (UniProt)

keyword

description

count in network

strength

signal

false discovery rate

KW-0808

Transferase

10 of 332

0.78

0.75

1.10e-05

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF02397

Bacterial sugar transferase

4 of 6

2.13

2.47

1.09e-05

PF00535

Glycosyl transferase family 2

5 of 14

1.86

2.43

3.75e-06

PF13727

CoA-binding domain

2 of 2

2.3

1.0

0.0144

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