Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS00023  |
| T6SS type | Type i3 |
| Strain | Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 |
| Replicon (RefSeq) | chromosome (NC_003197) |
| Location | 304665..339275 |
| Function | anti-bacterial |
| Comment | - |
| References | [1] Blondel CJ et al (2009) Comparative genomic analysis uncovers 3 novel loci encoding type six secretion systems differentially distributed in Salmonella serotypes. BMC Genomics. 0.6625. [PudMed:19653904] [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] Benz J et al (2013) Structural Insights into the Effector - Immunity System Tae4/Tai4 from Salmonella typhimurium. PLoS One. 8(6):e67362. [PudMed:23826277] [4] Sana TG, Flaugnatti N, Lugo KA, Lam LH, Jacobson A, Baylot V, Durand E, Journet L, Cascales E, Monack DM et al (2016) Salmonella Typhimurium utilizes a T6SS-mediated antibacterial weapon to establish in the host gut. Proc Natl Acad Sci U S A. 113(34):E5044-51. [PudMed:27503894] |
Experimental investigation has been performed.T6SS components and genome coordinates
| Component | PAAR | TagJ | TssA | TssB | TssC | TssD | TssE | TssF | TssG | TssH | TssI | TssJ | TssK | TssL | TssM |
| Number | 1 | 1 | 1 | 1 | 1 | 2 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| Component ID | Component | Locus tag (Gene) | Coordinate | Strand | Size (bp) | NCBI ID | Product |
|---|---|---|---|---|---|---|---|
| STM0260 (dniR) | 299924..301291 | - | 1368 | NP_459258.1 | murein transglycosylase D | ||
| STM0261 (gloB) | 301363..302118 | - | 756 | NP_459259.1 | hydroxyacylglutathione hydrolase | ||
| STM0262 (yafS) | 302153..302875 | + | 723 | NP_459260.1 | putative SAM-dependent methyltransferase | ||
| STM0263 (rnhA) | 302872..303339 | - | 468 | NP_459261.1 | ribonuclease HI | ||
| STM0264 (dnaQ) | 303403..304134 | + | 732 | NP_459262.1 | DNA polymerase III, epsilon subunit | ||
| T6CP000173 | TssA | STM0266 | 304666..305721 | - | 1056 | NP_459263.1 | hypothetical protein |
| T6CP000174 | TssG | STM0267 | 305732..306727 | - | 996 | NP_459264.1 | sciB domain protein |
| T6CP000175 | TssF | STM0268 | 306724..308607 | - | 1884 | NP_459265.1 | type VI secretion protein |
| T6CP000176 | TssE | STM0269 | 308623..309117 | - | 495 | NP_459266.1 | hypothetical protein |
| T6CP012699 | TagJ | STM0270 | 309114..309938 | - | 825 | NP_459267.1 | impE family protein |
| STM0271 | 309925..310827 | - | 903 | NP_459268.1 | hypothetical protein | ||
| T6CP000177 | TssH | STM0272 | 311195..313834 | + | 2640 | NP_459269.1 | ClpV1 family T6SS ATPase |
| T6CP000178 | TssB | STM0273 | 313934..314476 | + | 543 | NP_459270.1 | type VI secretion system-associated protein |
| T6CP000179 | TssC | STM0274 | 314500..316008 | + | 1509 | NP_459271.1 | EvpB family type VI secretion protein |
| STM0274A | 316071..316181 | + | 111 | NP_459272.1 | invasol SirA | ||
| STM0275 | 316308..316640 | + | 333 | NP_459273.3 | putative cytoplasmic protein | ||
| T6CP000180 | TssD | STM0276 | 316894..317379 | + | 486 | NP_459274.1 | Hcp1 family type VI secretion system effector |
| STM0277 | 317684..318169 | + | 486 | NP_459275.1 | hypothetical protein | ||
| STM0278 | 318154..318537 | + | 384 | NP_459276.1 | putative periplasmic protein | ||
| T6CP000181 | TssD | STM0279 | 318680..319165 | + | 486 | NP_459277.1 | Hcp1 family type VI secretion system effector |
| T6CP000182 | TssJ | STM0280 | 319232..319768 | + | 537 | NP_459278.1 | type VI secretion system-associated lipoprotein |
| T6CP000183 | TssK | STM0281 | 319772..321115 | + | 1344 | NP_459279.1 | type VI secretion system-associated protein |
| T6CP000184 | TssL | STM0282 | 321112..322416 | + | 1305 | NP_459280.1 | hypothetical protein |
| STM0283 | 322421..323194 | + | 774 | NP_459281.1 | hypothetical protein | ||
| STM0284 | 323397..323828 | + | 432 | NP_459282.1 | putative shiga-like toxin A subunit | ||
| T6CP000185 | TssM | STM0285 | 323862..327731 | + | 3870 | NP_459283.1 | hypothetical protein |
| STM0286 | 327731..328519 | + | 789 | NP_459284.1 | hypothetical protein | ||
| STM0287 | 328516..328932 | + | 417 | NP_459285.1 | putative periplasmic protein | ||
| STM0288 | 328956..329477 | + | 522 | NP_459286.1 | putative cytoplasmic protein | ||
| T6CP000186 | TssI | STM0289 | 329874..332063 | + | 2190 | NP_459287.1 | type VI secretion protein Vgr |
| STM0290 | 332087..332533 | + | 447 | NP_459288.1 | hypothetical protein | ||
| T6CP011413 | PAAR | STM0291 | 332552..336646 | + | 4095 | NP_459289.1 | putative RHS-family protein |
| STM0292 | 337096..337836 | + | 741 | NP_459290.1 | putative RHS-family protein | ||
| STM0293 | 337830..338276 | + | 447 | NP_459291.1 | hypothetical protein | ||
| STM0294 | 338839..339276 | + | 438 | NP_459292.1 | phosphotriesterase | ||
| STM0295 | 340045..340353 | + | 309 | NP_459293.1 | putative cytoplasmic protein | ||
| STM0296 | 340455..340703 | - | 249 | NP_446753.1 | putative cytoplasmic protein | ||
| STM0299 (safA) | 342210..342722 | + | 513 | NP_459297.1 | putative outer membrane protein | ||
| STM0300 (safB) | 342830..343543 | + | 714 | NP_459298.1 | putative fimbriae assembly chaparone |
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) |
|---|---|---|---|---|---|---|---|---|
| REG0087 |
STM1751 (H-NS) | protein | Global regulator | Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 | chromosome (NC_003197) | 1847277..1847690 (+) | 16765095 | STM0272 (ClpV) promotor (↑); STM0279 (hcp) promotor (↑); STM0285 promotor (↑); STM0289 (VgrG) promotor (↑); STM0268 promotor (↑) |
| REG0088 |
STM0693 (Fur) | protein | Global regulator | Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 | chromosome (NC_003197) | 756397..756849 (-) | 16764063 | STM0272 (ClpV) promoter (↑) |
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 |
|---|
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 |
|---|
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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