Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS00041  |
| T6SS type | Type i1 |
| Strain | Pseudomonas syringae pv. tomato str. DC3000 |
| Replicon (RefSeq) | chromosome (NC_004578) |
| Location | 2796816..2829435 |
| Function | - |
| Comment | - |
| References | [1] Haapalainen M et al (2012) Hcp2, a Secreted Protein of the Phytopathogen Pseudomonas syringae pv. Tomato DC3000, Is Required for Fitness for Competition against Bacteria and Yeasts. J Bacteriol. 194(18):4810-22. [PudMed:22753062] [2] Sarris PF et al (2010) In silico analysis reveals multiple putative type VI secretion systems and effector proteins in Pseudomonas syringae pathovars. Mol Plant Pathol. 11(6):795-804. [PudMed:21091602] [3] Boyer F et al (2009) Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources. BMC Genomics. 0.488888889. [PudMed:19284603] [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] |
Bioinformatics investigation has been performed.T6SS components and genome coordinates
| Component | Sfa2 | 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 |
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Component ID | Component | Locus tag (Gene) | Coordinate | Strand | Size (bp) | NCBI ID | Product |
|---|---|---|---|---|---|---|---|
| PSPTO_RS13100 | 2792008..2792712 | - | 705 | WP_044393213.1 | DUF1275 domain-containing protein | ||
| PSPTO_RS13105 | 2792754..2792981 | - | 228 | WP_003383427.1 | hypothetical protein | ||
| PSPTO_RS13110 | 2793112..2793453 | - | 342 | WP_007246648.1 | FKBP-type peptidyl-prolyl cis-trans isomerase | ||
| PSPTO_RS13115 | 2793591..2793875 | - | 285 | WP_011104063.1 | hypothetical protein | ||
| PSPTO_RS13120 | 2794541..2796109 | + | 1569 | WP_011104064.1 | TerC family protein | ||
| PSPTO_RS13125 | 2796179..2796754 | - | 576 | WP_011104065.1 | GNAT family N-acetyltransferase | ||
| PSPTO_RS13130 | 2796816..2797496 | - | 681 | WP_011104066.1 | hypothetical protein | ||
| PSPTO_RS13135 | 2797493..2800891 | - | 3399 | WP_164923175.1 | hypothetical protein | ||
| PSPTO_RS13140 | 2800881..2801763 | - | 883 | pseudogene | DUF4123 domain-containing protein | ||
| T6CP000334 | TssI | PSPTO_RS13145 | 2801756..2803798 | - | 2043 | WP_011104070.1 | type VI secretion system tip protein VgrG |
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.
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Regulator ID | Locus tag (Gene) | Regulator type | Regulatory pathway | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID | Target (Regulation) |
|---|---|---|---|---|---|---|---|---|
| REG0096 | PSPTO_RS08845 (relA) | protein | (p)ppGpp regulatory pathway | Pseudomonas syringae pv. tomato str. DC3000 | chromosome (NC_004578) | 1863879..1866122 (+) | 494457621 | T6SS transcripts (↓) |
| REG0097 | PSPTO_RS00410 (spoT) | protein | (p)ppGpp regulatory pathway | Pseudomonas syringae pv. tomato str. DC3000 | chromosome (NC_004578) | 94805..96910 (-) | 492171753 | T6SS transcripts (↓) |
| REG0098 | PSPTO_RS04545 (fpRel) | protein | (p)ppGpp regulatory pathway | Pseudomonas syringae pv. tomato str. DC3000 | chromosome (NC_004578) | 927082..927900 (+) | 499415849 | T6SS transcripts (↓) |
| REG0099 | PSPTO_RS28060 (Sfa) | protein | Global regulator | Pseudomonas syringae pv. tomato str. DC3000 | chromosome (NC_004578) | 6165047..6166564 (-) | 499418021 | T6SS transcripts (↓) |
Showing 1 to 4 of 4 rows
Experimental investigation has been performed. Bioinformatics investigation has been performed.
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Effector ID | Locus tag (Gene) | Classification | Cognate immunity protein | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID |
|---|---|---|---|---|---|---|---|
| No matching records found | |||||||
Experimental investigation has been performed. Bioinformatics investigation has been performed.
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Immunity protein ID | Locus tag (Gene) | Cognate effector | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID |
|---|---|---|---|---|---|---|
| No matching records found | ||||||
Experimental investigation has been performed.
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Accessory protein ID | Locus tag (Gene) | Type | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID | Related structure protein | Related effector |
|---|---|---|---|---|---|---|---|---|
| No matching records found | ||||||||