Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS00035  |
| T6SS type | Type i3 |
| Strain | Pseudomonas protegens Pf-5 |
| Replicon (RefSeq) | chromosome (NC_004129) |
| Location | 6897920..6930515 |
| Function | anti-bacterial; effector translocation |
| Comment | T6-secretion of a peptidoglycan amidase enzyme (antibacterial activity of T6SS implied). |
| References | [1] Whitney JC et al (2013) Identification, structure and function of a novel type VI secretion peptidoglycan glycoside hydrolase effector-immunity pair. J Biol Chem. 288(37):26616-24. [PudMed:23878199] [2] Hassan KA et al (2010) Inactivation of the GacA response regulator in Pseudomonas fluorescens Pf-5 has far-reaching transcriptomic consequences. Environ Microbiol. 12(4):899-915. [PudMed:20089046] [3] Loper JE et al (2012) Comparative Genomics of Plant-Associated Pseudomonas spp.: Insights into Diversity and Inheritance of Traits Involved in Multitrophic Interactions. PLoS Genet. 8(7):e1002784. [PudMed:22792073] [4] 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] [5] Russell AB et al (2012) A widespread bacterial type VI secretion effector superfamily identified using a heuristic approach. Cell Host Microbe. 11(5):538-49. [PudMed:22607806] |
Experimental investigation has been performed.T6SS components and genome coordinates
| Component | FHA | PAAR | PpkA | PppA | TagF | TagQ | TagR | TagS | TagT | 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 | 1 | 1 | 1 | 1 |
Loading, please wait
Component ID | Component | Locus tag (Gene) | Coordinate | Strand | Size (bp) | NCBI ID | Product |
|---|---|---|---|---|---|---|---|
| PFL_RS30780 | 6893219..6894619 | + | 1401 | WP_011064240.1 | HDOD domain-containing protein | ||
| PFL_RS30785 | 6894678..6895061 | - | 384 | WP_015637475.1 | hypothetical protein | ||
| T6CP012428 | TagQ | PFL_RS30790 | 6895202..6896131 | - | 930 | WP_011064242.1 | hypothetical protein |
| T6CP012430 | TagR | PFL_RS30795 | 6896215..6897927 | - | 1713 | WP_011064243.1 | SUMF1/EgtB/PvdO family nonheme iron enzyme |
| T6CP012431 | TagS | PFL_RS30800 | 6897920..6899122 | - | 1203 | WP_011064244.1 | ABC transporter permease |
| T6CP012432 | TagT | PFL_RS30805 | 6899122..6899838 | - | 717 | WP_011064245.1 | ABC transporter ATP-binding protein |
| T6CP012429 | PpkA | PFL_RS30810 | 6899838..6902921 | - | 3084 | WP_011064246.1 | serine/threonine-protein kinase |
| T6CP012433 | PppA | PFL_RS30815 | 6902924..6903658 | - | 735 | WP_011064247.1 | protein phosphatase 2C domain-containing protein |
| T6CP012434 | TagF | PFL_RS30820 (tagF) | 6903659..6904312 | - | 654 | WP_011064248.1 | type VI secretion system-associated protein TagF |
| T6CP000275 | TssM | PFL_RS30825 (tssM) | 6904309..6907815 | - | 3507 | WP_011064249.1 | type VI secretion system membrane subunit TssM |
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.
Loading, please wait
Regulator ID | Locus tag (Gene) | Regulator type | Regulatory pathway | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID | Target (Regulation) |
|---|---|---|---|---|---|---|---|---|
| REG0091 | PFL_RS17995 (gacA/uvrY/SirA) | protein | TCS-RR | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 4110513..4111154 (-) | 499374263 | T6SS transcripts (↓) |
| REG0092 | PFL_RS30815 (pppA) | protein | Tpp | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 6902924..6903658 (-) | 499376669 | Hcp secretion (↑) |
Showing 1 to 2 of 2 rows
Experimental investigation has been performed. Bioinformatics investigation has been performed.
Loading, please wait
Effector ID | Locus tag (Gene) | Classification | Cognate immunity protein | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID |
|---|---|---|---|---|---|---|---|
| EFF01474 | PFL_6096 (rhsA) | Tde | IMU00300 | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 6925413..6929873 (+) | 68347678 |
| EFF00045 | PFL_5498 (Tae3) | Tae | IMU00073 | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 6278373..6278744 (+) | 70732799 |
| EFF00434 | PFL_3037 (Tge2) | Tge | IMU00074 | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 3502760..3503293 (-) | 70730402 |
| EFF01475 | PFL_6209 (Tne2) | Tne | IMU00301 | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 7049182..7050408 (+) | 68347791 |
Showing 1 to 4 of 4 rows
Experimental investigation has been performed. Bioinformatics investigation has been performed.
Loading, please wait
Immunity protein ID | Locus tag (Gene) | Cognate effector | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID |
|---|---|---|---|---|---|---|
| IMU00073 | PFL_5499 (Tai3) | EFF00045 | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 6278755..6279204 (+) | 70732800 |
| IMU00074 | PFL_3036 (Tgi2) | EFF00434 | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 3502296..3502766 (-) | 70730401 |
| IMU00300 | PFL_6097 (rhsI) | EFF01474 | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 6929889..6930515 (+) | 70733380 |
| IMU00301 | PFL_6210 (Tni2) | EFF01475 | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 7050414..7050875 (+) | 70733493 |
Showing 1 to 4 of 4 rows
Experimental investigation has been performed.
Loading, please wait
Accessory protein ID | Locus tag (Gene) | Type | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID | Related structure protein | Related effector |
|---|---|---|---|---|---|---|---|---|
| ACP00012 | PFL_6095 (eagR1) | adaptor | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 6924978..6925403 (+) | 499376685 | - | PFL_6096 (RhsA) |
| ACP00013 | PFL_6099 (eagT2) | adaptor | Pseudomonas protegens Pf-5 | chromosome (NC_004129) | 6930853..6931287 (-) | 499376689 | - | PFL_6209 (Tne2) |
Showing 1 to 2 of 2 rows