Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS00042  |
| T6SS type | Type i1 |
| Strain | Pseudomonas syringae pv. tomato str. DC3000 |
| Replicon (RefSeq) | chromosome (NC_004578) |
| Location | 6149242..6189243 |
| Function | anti-eukaryotic; anti-bacterial; effector translocation; virulence |
| Comment | Growth suppression of yeast; growth inhibition of E. coli. |
| 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] |
Experimental investigation has been performed.T6SS components and genome coordinates
| Component | FHA | PAAR | Sfa2 | Stk1 | Stp1 | 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 | 2 | 1 | 1 | 1 | 1 |
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Component ID | Component | Locus tag (Gene) | Coordinate | Strand | Size (bp) | NCBI ID | Product |
|---|---|---|---|---|---|---|---|
| PSPTO_RS27975 | 6144860..6145018 | - | 159 | WP_158506383.1 | hypothetical protein | ||
| PSPTO_RS27980 | 6145158..6145379 | + | 222 | WP_046463683.1 | hypothetical protein | ||
| PSPTO_RS27985 | 6145421..6146974 | - | 1554 | WP_003409202.1 | IS66-like element ISPsy5 family transposase | ||
| PSPTO_RS27990 (tnpB) | 6146992..6147348 | - | 357 | WP_080115702.1 | IS66 family insertion sequence element accessory protein TnpB | ||
| PSPTO_RS27995 | 6147780..6148190 | - | 411 | WP_149032214.1 | hypothetical protein | ||
| PSPTO_RS28000 | 6148403..6149239 | - | 837 | WP_052746260.1 | hypothetical protein | ||
| PSPTO_RS28005 | 6149242..6150270 | - | 1029 | WP_046463967.1 | hypothetical protein | ||
| PSPTO_RS28010 | 6152531..6153547 | - | 1017 | WP_011105475.1 | sel1 repeat family protein | ||
| T6CP000344 | TssI | PSPTO_RS28015 | 6153553..6155589 | - | 2037 | WP_011105476.1 | type VI secretion system tip protein VgrG |
| T6CP012436 | Stk1 | PSPTO_RS28020 | 6155611..6156618 | - | 1008 | WP_046464012.1 | serine/threonine protein kinase |
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 |
|---|---|---|---|---|---|---|---|
| EFF00059 | PSPTO_RS28130 | - | - | Pseudomonas syringae pv. tomato str. DC3000 | chromosome (NC_004578) | 6181106..6181624 (+) | 28872543 |
Showing 1 to 1 of 1 rows
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 | ||||||||