KRG18918.1 protein (Berkiella aquae) - STRING interaction network

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Experiments

Co-purification, co-crystallization, Yeast2Hybrid, Genetic Interactions, etc ... as imported from primary sources.

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Cooccurrence

Gene families whose occurrence patterns across genomes show similarities.

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Databases

Known metabolic pathways, protein complexes, signal transduction pathways, etc ... from curated databases.

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Fusion

Genes that are sometimes fused into single open reading frames.

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Textmining

Automated, unsupervised textmining - searching for proteins that are frequently mentioned together.

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Coexpression

Proteins whose genes are observed to be correlated in expression, across a large number of experiments.

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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.

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query proteins and first shell of interactors

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second shell of interactors

Node Content

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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

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[Homology]

Score

KRG18918.1

Hypothetical protein. (139 aa)

Predicted Functional Partners:

KRG18919.1

Hypothetical protein.

0.510

KRG18917.1

Hypothetical protein.

0.486

Your Current Organism:

Berkiella aquae

NCBI taxonomy Id: 295108
Other names: C. Berkiella aquae, Candidatus Berkiella aquae, Coxiellaceae bacterium HT99, Legionella-like amoebal pathogen HT99

Basic Settings

Network type:

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physical subnetwork

( the edges indicate that the proteins are part of a physical complex )

meaning of network edges:

evidence

( line color indicates the type of interaction evidence )

confidence

( line thickness indicates the strength of data support )

active interaction sources:

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Co‑expression

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structured XML interaction data, according to the 'PSI-MI' data standard

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node degree of proteins in your network (given the current score cut-off)

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MFA: multi-fasta format - containing the aminoacid sequences in the network

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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 accession	node2 accession	node1 annotation	node2 annotation	score
KRG18917.1	KRG18918.1	HT99x_02907	HT99x_02908	Hypothetical protein.	Hypothetical protein.	0.486
KRG18918.1	KRG18917.1	HT99x_02908	HT99x_02907	Hypothetical protein.	Hypothetical protein.	0.486
KRG18918.1	KRG18919.1	HT99x_02908	HT99x_02909	Hypothetical protein.	Hypothetical protein.	0.510
KRG18919.1	KRG18918.1	HT99x_02909	HT99x_02908	Hypothetical protein.	Hypothetical protein.	0.510

[ The below analysis is limited to the network nodes included in the specified statistical background ]

Network Stats

number of nodes:

number of edges:

average node degree:

3.64

avg. local clustering coefficient:

0.863

expected number of edges:

PPI enrichment p-value:

0.00379

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:0097502

Mannosylation

3 of 8

2.04

1.19

0.0054

GO:0006493

Protein O-linked glycosylation

3 of 8

2.04

1.19

0.0054

GO:0009103

Lipopolysaccharide biosynthetic process

3 of 25

1.55

0.9

0.0130

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:5925

Mixed, incl. Protein of unknown function (DUF1501), and HigA2-like, helix-turn-helix domain

5 of 6

2.39

3.71

5.05e-08

CL:2691

GPI mannosyltransferase, and Chromosome segregation

4 of 14

1.92

2.05

5.08e-05

CL:2707

GPI mannosyltransferase, and HAD superfamily

3 of 6

2.17

1.83

0.00029

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF03901

Alg9-like mannosyltransferase family

3 of 4

2.34

1.79

0.00043

Protein Domains and Features (InterPro)

domain

description

count in network

strength

signal

false discovery rate

IPR005599

GPI mannosyltransferase

3 of 4

2.34

1.56

0.0012

Enrichment display settings

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