GCA_001730685_01026 protein (Caloranaerobacter ferrireducens)

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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.

STRING allows inspection of the interaction evidence for any given network. Choose any of the viewers above (disabled if not applicable in your network).

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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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

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[Homology]

Score

GCA_001730685_01026

Unannotated protein. (44 aa)

Predicted Functional Partners:

GCA_001730685_01027

Unannotated protein.

0.523

Your Current Organism:

Caloranaerobacter ferrireducens

NCBI taxonomy Id: 1323370
Other names: C. ferrireducens, Caloranaerobacter ferrireducens Zeng et al. 2015, Caloranaerobacter sp. DY22619, DSM 27799, JCM 19467, MCCC1A06455, strain DY22619

Basic Settings

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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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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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a flat-file format describing the coordinates and colors of nodes in the network

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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

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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 annotation	node2 annotation	score
GCA_001730685_01026	GCA_001730685_01027	Unannotated protein.	Unannotated protein.	0.523
GCA_001730685_01027	GCA_001730685_01026	Unannotated protein.	Unannotated protein.	0.523

[ 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:

1.33

avg. local clustering coefficient:

0.667

expected number of edges:

PPI enrichment p-value:

0.526

your network does not have 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

Local Network Cluster (STRING)

cluster

description

count in network

strength

signal

false discovery rate

CL:6712

Mixed, incl. T4-like virus tail tube protein gp19, and Phage tail sheath C-terminal domain

11 of 15

2.42

9.7

6.91e-23

CL:6715

Mixed, incl. T4-like virus tail tube protein gp19, and Phage tail sheath C-terminal domain

8 of 10

2.46

7.11

1.27e-15

CL:6719

Mixed, incl. tryptophan-tRNA ligase activity, and T4-like virus tail tube protein gp19

5 of 5

2.56

4.67

8.69e-10

Subcellular Localization (COMPARTMENTS)

compartment

description

count in network

strength

signal

false discovery rate

GOCC:0008537

Proteasome activator complex

2 of 2

2.56

1.04

0.0127

Protein Domains (Pfam)

domain

description

count in network

strength

signal

false discovery rate

PF06841

T4-like virus tail tube protein gp19

2 of 2

2.56

0.9

0.0235

Enrichment display settings

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