GCA_001700965_01687 protein (Stenotrophomonas nitritireducens)

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_001700965_01687

Unannotated protein. (207 aa)

Predicted Functional Partners:

GCA_001700965_01688

0.541

GCA_001700965_01686

0.422

Your Current Organism:

Stenotrophomonas nitritireducens

NCBI taxonomy Id: 83617
Other names: ATCC BAA-12, CCUG 46888, CIP 107228, DSM 12575, JCM 13311, S. nitritireducens, Stenotrophomonas nitritireducens Finkmann et al. 2000, strain L2

Network Stats

number of nodes:

11

number of edges:

25

average node degree:

4.55

avg. local clustering coefficient:

0.773

expected number of edges:

11

PPI enrichment p-value:

0.000227

your network has significantly more interactions
than expected (what does that mean?)

Functional enrichments in your networkNote: some enrichments may be expected here (why?)
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Biological Process (Gene Ontology)

GO-term

description

count in network

strength

signal

false discovery rate

GO:1903509

Liposaccharide metabolic process

5 of 33

1.69

1.86

5.08e-05

GO:0009103

Lipopolysaccharide biosynthetic process

4 of 20

1.81

1.68

0.00028

GO:0009247

Glycolipid biosynthetic process

3 of 15

1.81

1.32

0.0021

GO:0009312

Oligosaccharide biosynthetic process

3 of 18

1.73

1.26

0.0024

GO:0008610

Lipid biosynthetic process

5 of 73

1.34

1.24

0.00050

(more ...)

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:2505

Mostly uncharacterized, incl. Protein glycosylation, and RutC-like superfamily

6 of 12

2.21

4.09

2.38e-09

CL:2507

Mixed, incl. RutC-like superfamily, and Sulfatase-modifying factor enzyme 1

2 of 6

2.03

0.86

0.0237

KEGG Pathways

pathway

description

count in network

strength

signal

false discovery rate

map00540

Lipopolysaccharide biosynthesis

5 of 38

1.63

2.02

9.37e-06

Enrichment display settings

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Coexpression

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node1	node2	node1 annotation	node2 annotation	score
GCA_001700965_01686	GCA_001700965_01687	Unannotated protein.	Unannotated protein.	0.422
GCA_001700965_01687	GCA_001700965_01686	Unannotated protein.	Unannotated protein.	0.422
GCA_001700965_01687	GCA_001700965_01688	Unannotated protein.	Unannotated protein.	0.541
GCA_001700965_01688	GCA_001700965_01687	Unannotated protein.	Unannotated protein.	0.541