Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS00040  |
| T6SS type | Type i1 |
| Strain | Pectobacterium atrosepticum SCRI1043 |
| Replicon (RefSeq) | chromosome (NC_004547) |
| Location | 3829218..3869582 |
| Function | anti-eukaryotic; effector translocation; virulence |
| Comment | Virulence in potato (stem and tuber infection models). |
| References | [1] Liu H et al (2008) Quorum sensing coordinates brute force and stealth modes of infection in the plant pathogen Pectobacterium atrosepticum. PLoS Pathog. 4(6):e1000093. [PudMed:18566662] [2] 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] [3] Mattinen L et al (2008) Microarray profiling of host-extract-induced genes and characterization of the type VI secretion cluster in the potato pathogen Pectobacterium atrosepticum. Microbiology. 154(Pt 8):2387-96. [PudMed:18667571] [4] Mattinen L et al (2007) Host-extract induced changes in the secretome of the plant pathogenic bacterium Pectobacterium atrosepticum. Proteomics. 7(19):3527-37. [PudMed:17726675] [5] Bernard CS et al (2011) Regulation of type VI secretion gene clusters by sigma54 and cognate enhancer binding proteins. J Bacteriol. 193(9):2158-67. [PudMed:21378190] |
Experimental investigation has been performed.T6SS components and genome coordinates
| Component | FHA | PAAR | TssA | TssB | TssC | TssD | TssE | TssF | TssG | TssH | TssI | TssJ | TssK | TssL | TssM |
| Number | 1 | 1 | 2 | 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 |
|---|---|---|---|---|---|---|---|
| ECA_RS16845 | 3824586..3827465 | - | 2880 | WP_011094921.1 | toprim domain-containing protein | ||
| ECA_RS16850 | 3827578..3827973 | + | 396 | WP_011094922.1 | helix-turn-helix domain-containing protein | ||
| ECA_RS16855 | 3828045..3828374 | + | 330 | WP_011094923.1 | type I toxin-antitoxin system SymE family toxin | ||
| ECA_RS16860 | 3828371..3828715 | + | 345 | WP_011094928.1 | SymE family type I addiction module toxin | ||
| ECA_RS16865 | 3828784..3829215 | - | 432 | WP_039494437.1 | hypothetical protein | ||
| ECA_RS16870 | 3829572..3834074 | - | 4503 | pseudogene | RHS repeat protein | ||
| ECA_RS16875 | 3834095..3835012 | - | 918 | WP_011094931.1 | DUF4123 domain-containing protein | ||
| ECA_RS16880 | 3835009..3835965 | - | 957 | WP_011094932.1 | DUF4123 domain-containing protein | ||
| ECA_RS16885 | 3836134..3836832 | - | 699 | WP_080708294.1 | hypothetical protein | ||
| ECA_RS16890 | 3836898..3837596 | - | 699 | WP_039293252.1 | hypothetical 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.
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Regulator ID | Locus tag (Gene) | Regulator type | Regulatory pathway | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID | Target (Regulation) |
|---|---|---|---|---|---|---|---|---|
| REG0093 | ECA_RS00520 (expI) | protein | QS regulatory pathway | Pectobacterium atrosepticum SCRI1043 | chromosome (NC_004547) | 125689..126339 (+) | 499404281 | T6SS transcripts (ECA4275[hcp1], ECA3428[hcp2] and ECA2866[hcp3]) (↓) |
| REG0094 | ECA3435 (bEBP/VasH) | protein | Global regulator | Pectobacterium atrosepticum SCRI1043 | chromosome (NC_004547) | 3850745..3852298 (-) | 499407476 | T6SS gene cluster promoter (PECA3445) (↓); Hcp gene cluster promoter (PECA4275) (↓); Hcp gene cluster promoter (PECA2866) (↓) |
| REG0095 | ECA0288 (rpoN) | protein | Global regulator | Pectobacterium atrosepticum SCRI1043 | chromosome (NC_004547) | 336007..337440 (-) | 499404454 | T6SS gene cluster promoter (PECA3445) (↓); Hcp gene cluster promoter (PECA4275) (↓); Hcp gene cluster promoter (PECA2866) (↓) |
Showing 1 to 3 of 3 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 |
|---|---|---|---|---|---|---|---|
| EFF00055 | ECA_RS21185 | - | - | Pectobacterium atrosepticum SCRI1043 | chromosome (NC_004547) | 4790053..4790571 (+) | 50123195 |
| EFF00050 | ECA_RS02315 | - | - | Pectobacterium atrosepticum SCRI1043 | chromosome (NC_004547) | 520562..521041 (-) | 50119407 |
| EFF00051 | ECA_RS14065 | - | - | Pectobacterium atrosepticum SCRI1043 | chromosome (NC_004547) | 3204842..3205360 (+) | 50121790 |
| EFF00053 | ECA_RS16900 | - | - | Pectobacterium atrosepticum SCRI1043 | chromosome (NC_004547) | 3839060..3841096 (-) | 50122351 |
| EFF00054 | ECA_RS16905 | - | - | Pectobacterium atrosepticum SCRI1043 | chromosome (NC_004547) | 3841279..3841797 (-) | 50122352 |
Showing 1 to 5 of 5 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 | ||||||||