GAPS1

Contributors: Marian Dominguez-Mirazo

Description

The GAPS1 system is composed of a single protein. It was found in Gamma-Mobile-Trio (GMT) protein containing genomic island in Vibrio, and cloned into E. coli K-12 () . The name GAPS derives from the "GMT-encoded Anti-Phage System" acronym. GAPS1 contains a predicted nuclease domain whose mutation prevents defense activity, however DNA degradation was not detected in targeted phage () . Mutations in the folded capsid protein (Gp10) of phage T7 result in an escape phenotype, with GAPS1 shown to be activated upon Gp10 expression, suggesting activation of the system at late stages of the infection cycle () .

Molecular mechanisms

The molecular mechanism remains to be fully elucidated.

Example of genomic structure

The GAPS1 is composed of 1 protein: GAPS1.

Here is an example found in the RefSeq database:

The GAPS1 system in Hydrogenophaga sp. BPS33 (GCF_009859475.1, NZ_CP044549) is composed of 1 protein: GAPS1 (WP_159591124.1)

Distribution of the system among prokaryotes

Among the 22,803 complete genomes of RefSeq, the GAPS1 is detected in 434 genomes (1.9 %).

The system was detected in 56 different species.

Proportion of genome encoding the GAPS1 system for the 14 phyla with more than 50 genomes in the RefSeq database.

Structure

GAPS1

Example 1

Experimental validation

      
graph LR;
    Mahata_2023[Mahata et al., 2023] --> Origin_0
    Origin_0[Vibrio parahaemolyticus 
WP_005477165.1] --> Expressed_0[Escherichia coli]
    Expressed_0[Escherichia coli] ----> T7 & P1-vir
    subgraph Title1[Reference]
        Mahata_2023
end
    subgraph Title2[System origin]
        Origin_0
end
    subgraph Title3[Expression species]
        Expressed_0
end
    subgraph Title4[Protects against]
        T7
        P1-vir
end
    style Title1 fill:none,stroke:none,stroke-width:none
    style Title2 fill:none,stroke:none,stroke-width:none
    style Title3 fill:none,stroke:none,stroke-width:none
    style Title4 fill:none,stroke:none,stroke-width:none

    

References

10.1101/2023.03.28.534373
no authors
no containerTitle ()