Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS00539  |
| T6SS type | Type i4a |
| Strain | Pseudomonas fluorescens F113 |
| Replicon (RefSeq) | chromosome (NC_016830) |
| Location | 2807673..2826705 |
| Function | anti-bacterial |
| Comment | P. fluorescens F113 F1- and F3-T6SS are implicated in bacterial killing |
| References | [1] Redondo-Nieto M et al (2013) Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction. BMC Genomics. 14:54. [PudMed:23350846] [2] Barret M et al (2011) Genomic analysis of the type VI secretion systems in Pseudomonas spp.: novel clusters and putative effectors uncovered. Microbiology. 157(Pt 6):1726-39. [PudMed:21474537] [3] Dur��n D, Bernal P, Vazquez-Arias D, Blanco-Romero E, Garrido-Sanz D, Redondo-Nieto M, Rivilla R, Mart��n M. et al (2021) Pseudomonas fluorescens F113 type VI secretion systems mediate bacterial killing and adaption to the rhizosphere microbiome.. Sci Rep. 11(1):5772. [PudMed:33707614] |
Experimental investigation has been performed.T6SS components and genome coordinates
| Component | TssA | TssB | TssC | TssD | TssE | TssF | TssG | TssH | TssI | TssK | TssL | TssM |
| Number | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| Component ID | Component | Locus tag (Gene) | Coordinate | Strand | Size (bp) | NCBI ID | Product |
|---|---|---|---|---|---|---|---|
| PSF113_RS42555 | 2803210..2804325 | - | 1116 | WP_014337894.1 | Gfo/Idh/MocA family oxidoreductase | ||
| PSF113_RS42560 | 2804550..2805317 | - | 768 | WP_014337895.1 | SDR family oxidoreductase | ||
| PSF113_RS42565 | 2805342..2806409 | - | 1068 | WP_014337896.1 | phosphotransferase family protein | ||
| PSF113_RS42570 | 2806608..2807003 | + | 396 | WP_014337897.1 | DUF4280 domain-containing protein | ||
| PSF113_RS42575 | 2807117..2807659 | - | 543 | WP_014337898.1 | toxin-antitoxin system YwqK family antitoxin | ||
| T6CP005717 | TssI | PSF113_RS42580 (tssI) | 2807673..2809682 | - | 2010 | WP_014337899.1 | type VI secretion system tip protein VgrG |
| PSF113_RS42585 | 2809694..2810260 | - | 567 | WP_014337900.1 | hypothetical protein | ||
| T6CP005718 | TssH | PSF113_RS42590 (tssH) | 2810386..2812929 | - | 2544 | WP_014337901.1 | type VI secretion system ATPase TssH |
| T6CP005719 | TssG | PSF113_RS42595 (tssG) | 2812931..2813956 | - | 1026 | WP_014337902.1 | type VI secretion system baseplate subunit TssG |
| T6CP005720 | TssF | PSF113_RS42600 (tssF) | 2813920..2815710 | - | 1791 | WP_014337903.1 | type VI secretion system baseplate subunit TssF |
| T6CP008973 | TssE | PSF113_RS42605 (tssE) | 2815694..2816137 | - | 444 | WP_014337904.1 | type VI secretion system baseplate subunit TssE |
| T6CP005721 | TssD | PSF113_RS42610 | 2816151..2816648 | - | 498 | WP_014337905.1 | type VI secretion system tube protein Hcp |
| T6CP005722 | TssC | PSF113_RS42615 (tssC) | 2816880..2818361 | - | 1482 | WP_014337906.1 | type VI secretion system contractile sheath large subunit |
| T6CP005723 | TssB | PSF113_RS42620 (tssB) | 2818392..2818952 | - | 561 | WP_014337907.1 | type VI secretion system contractile sheath small subunit |
| PSF113_RS42625 | 2819177..2819626 | + | 450 | WP_014337908.1 | hypothetical protein | ||
| T6CP005724 | TssK | PSF113_RS42630 (tssK) | 2819691..2821022 | + | 1332 | WP_014337909.1 | type VI secretion system baseplate subunit TssK |
| T6CP008972 | TssL | PSF113_RS42635 | 2821041..2821805 | + | 765 | WP_014337910.1 | DotU/TssL family secretion system protein |
| T6CP005725 | TssM | PSF113_RS42640 | 2821802..2825626 | + | 3825 | WP_014337911.1 | type VI secretion system protein ImpL |
| T6CP005726 | TssA | PSF113_RS42645 (tssA) | 2825623..2826705 | + | 1083 | WP_014337912.1 | type VI secretion system protein TssA |
| PSF113_RS42650 | 2826702..2827655 | - | 954 | WP_014337913.1 | 2-hydroxyacid dehydrogenase | ||
| PSF113_RS62760 | 2827910..2828050 | + | 141 | WP_156334874.1 | hypothetical protein | ||
| PSF113_RS42660 | 2828467..2829747 | + | 1281 | WP_014337914.1 | HAAAP family serine/threonine permease |
Genes in the 5-Kb flanking regions if available, or non-core components encoded by the T6SS gene cluster if any.
Download FASTA format files
Note: in the 'Target' column, ↓ means the target is positively regulated by the regulator, while ↑ indicates negatively regulation.
Experimental investigation has been performed.
Bioinformatics investigation has been performed.| Regulator ID | Locus tag (Gene) | Regulator type | Regulatory pathway | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID | Target (Regulation) |
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Experimental investigation has been performed. Bioinformatics investigation has been performed.| Effector ID | Locus tag (Gene) | Classification | Cognate immunity protein | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID |
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Experimental investigation has been performed. Bioinformatics investigation has been performed.| Immunity protein ID | Locus tag (Gene) | Cognate effector | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID |
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Experimental investigation has been performed.| Accessory protein ID | Locus tag (Gene) | Type | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID | Related structure protein | Related effector |
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