Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS00540  |
| T6SS type | Type i3 |
| Strain | Pseudomonas fluorescens F113 |
| Replicon (RefSeq) | chromosome (NC_016830) |
| Location | 6672386..6694009 |
| 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 | FHA | PAAR | PpkA | PppA | TagF | TssA | TssB | TssC | TssD | TssE | TssF | TssG | TssH | TssI | TssJ | TssK | TssL | TssM |
| Number | 1 | 1 | 1 | 1 | 1 | 1 | 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 |
|---|---|---|---|---|---|---|---|
| T6CP012522 | PpkA | PSF113_RS59775 | 6667897..6670995 | - | 3099 | WP_199771240.1 | serine/threonine-protein kinase |
| T6CP012523 | PppA | PSF113_RS59780 | 6671004..6671735 | - | 732 | WP_003206909.1 | protein phosphatase 2C domain-containing protein |
| T6CP012524 | TagF | PSF113_RS59785 (tagF) | 6671736..6672389 | - | 654 | WP_014340879.1 | type VI secretion system-associated protein TagF |
| T6CP005727 | TssM | PSF113_RS59790 (tssM) | 6672386..6675886 | - | 3501 | WP_014340880.1 | type VI secretion system membrane subunit TssM |
| T6CP005728 | TssL | PSF113_RS59795 | 6675883..6677193 | - | 1311 | WP_014340881.1 | DotU family type VI secretion system protein |
| T6CP005729 | TssK | PSF113_RS59800 (tssK) | 6677200..6678534 | - | 1335 | WP_014340882.1 | type VI secretion system baseplate subunit TssK |
| T6CP005730 | TssJ | PSF113_RS59805 (tssJ) | 6678550..6679056 | - | 507 | WP_014340883.1 | type VI secretion system lipoprotein TssJ |
| T6CP011977 | FHA | PSF113_RS59810 (tagH) | 6679125..6680636 | - | 1512 | WP_041476202.1 | type VI secretion system-associated FHA domain protein TagH |
| T6CP005731 | TssA | PSF113_RS59815 (tssA) | 6681052..6682089 | + | 1038 | WP_014340885.1 | type VI secretion system protein TssA |
| T6CP005732 | TssB | PSF113_RS59820 (tssB) | 6682171..6682677 | + | 507 | WP_003206923.1 | type VI secretion system contractile sheath small subunit |
| T6CP005733 | TssC | PSF113_RS59825 (tssC) | 6682680..6684176 | + | 1497 | WP_041476203.1 | type VI secretion system contractile sheath large subunit |
| T6CP005734 | TssD | PSF113_RS59830 | 6684399..6684887 | + | 489 | WP_003206927.1 | type VI secretion system tube protein Hcp |
| PSF113_RS59835 | 6684969..6685418 | + | 450 | WP_014340887.1 | type VI secretion system amidase effector protein Tae4 | ||
| PSF113_RS59840 | 6685418..6685855 | + | 438 | WP_041476204.1 | hypothetical protein | ||
| T6CP005735 | TssE | PSF113_RS59845 (tssE) | 6685849..6686361 | + | 513 | WP_003206934.1 | type VI secretion system baseplate subunit TssE |
| T6CP005736 | TssF | PSF113_RS59850 (tssF) | 6686358..6688217 | + | 1860 | WP_014340889.1 | type VI secretion system baseplate subunit TssF |
| T6CP005737 | TssG | PSF113_RS59855 (tssG) | 6688181..6689230 | + | 1050 | WP_041476205.1 | type VI secretion system baseplate subunit TssG |
| T6CP005738 | TssH | PSF113_RS59860 (tssH) | 6689223..6691913 | + | 2691 | WP_014340891.1 | type VI secretion system ATPase TssH |
| T6CP005739 | TssI | PSF113_RS59865 | 6692072..6694009 | + | 1938 | WP_014340892.1 | type VI secretion system tip protein VgrG |
| PSF113_RS59870 | 6694028..6694462 | + | 435 | WP_003206943.1 | DUF1795 domain-containing protein | ||
| T6CP011978 | PAAR | PSF113_RS59875 | 6694475..6698914 | + | 4440 | WP_014340893.1 | RHS domain-containing protein |
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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