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 |
| 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 |
| T6CP012437 | Stp1 | PSPTO_RS28025 | 6156615..6157343 | - | 729 | WP_011105478.1 | serine/threonine-protein phosphatase |
| T6CP000345 | TssM | PSPTO_RS28030 (tssM) | 6157343..6160870 | - | 3528 | WP_046464016.1 | type VI secretion system membrane subunit TssM |
| T6CP000346 | TssL | PSPTO_RS28035 | 6160884..6161759 | - | 876 | WP_011105480.1 | type IVB secretion system protein IcmH/DotU |
| T6CP000347 | TssK | PSPTO_RS28040 (tssK) | 6161765..6163096 | - | 1332 | WP_011105481.1 | type VI secretion system baseplate subunit TssK |
| T6CP000348 | TssJ | PSPTO_RS28045 (tssJ) | 6163099..6163599 | - | 501 | WP_011105482.1 | type VI secretion system lipoprotein TssJ |
| T6CP011434 | FHA | PSPTO_RS28050 (tagH) | 6163605..6164801 | - | 1197 | WP_011105483.1 | type VI secretion system-associated FHA domain protein TagH |
| PSPTO_RS28055 | 6164819..6164959 | - | 141 | WP_017702037.1 | hypothetical protein | ||
| T6CP012438 | Sfa2 | PSPTO_RS28060 | 6165047..6166564 | - | 1518 | WP_011105485.1 | sigma-54-dependent Fis family transcriptional regulator |
| T6CP000349 | TssH | PSPTO_RS28065 (tssH) | 6166575..6169223 | - | 2649 | WP_011105486.1 | type VI secretion system ATPase TssH |
| T6CP000350 | TssG | PSPTO_RS28070 (tssG) | 6169237..6170244 | - | 1008 | WP_011105487.1 | type VI secretion system baseplate subunit TssG |
| T6CP000351 | TssF | PSPTO_RS28075 (tssF) | 6170208..6171995 | - | 1788 | WP_046464013.1 | type VI secretion system baseplate subunit TssF |
| PSPTO_RS30080 | 6171985..6172587 | - | 603 | WP_193383850.1 | hypothetical protein | ||
| PSPTO_RS28085 | 6172574..6172951 | - | 378 | WP_046464014.1 | hypothetical protein | ||
| PSPTO_RS28090 | 6173232..6174209 | - | 978 | WP_007247571.1 | IS5-like element ISPssy family transposase | ||
| PSPTO_RS28095 | 6174382..6174792 | - | 411 | WP_011105489.1 | hypothetical protein | ||
| PSPTO_RS28100 | 6174792..6175730 | - | 939 | WP_011105490.1 | hypothetical protein | ||
| T6CP011435 | PAAR | PSPTO_RS28105 | 6175762..6176286 | - | 525 | WP_003413692.1 | PAAR domain-containing protein |
| T6CP000352 | TssE | PSPTO_RS28110 (tssE) | 6176297..6176704 | - | 408 | WP_011105491.1 | type VI secretion system baseplate subunit TssE |
| T6CP000353 | TssC | PSPTO_RS28115 (tssC) | 6176718..6178196 | - | 1479 | WP_011105492.1 | type VI secretion system contractile sheath large subunit |
| T6CP000354 | TssB | PSPTO_RS28120 (tssB) | 6178225..6178731 | - | 507 | WP_011105493.1 | type VI secretion system contractile sheath small subunit |
| T6CP008398 | TssA | PSPTO_RS28125 (tssA) | 6178764..6180320 | - | 1557 | WP_011105494.1 | type VI secretion system protein TssA |
| T6CP008399 | TssD | PSPTO_RS28130 | 6181106..6181624 | + | 519 | WP_011105495.1 | Hcp family type VI secretion system effector |
| T6CP000355 | TssI | PSPTO_RS28135 | 6181756..6183798 | + | 2043 | WP_011105496.1 | type VI secretion system tip protein VgrG |
| PSPTO_RS28140 | 6183788..6184525 | + | 738 | WP_046463476.1 | DUF4123 domain-containing protein | ||
| PSPTO_RS28145 | 6184525..6188772 | + | 4248 | pseudogene | RHS repeat protein | ||
| PSPTO_RS28150 | 6189252..6189704 | + | 453 | WP_149032210.1 | hypothetical protein | ||
| PSPTO_RS28155 | 6189745..6190467 | + | 723 | pseudogene | RHS domain-containing protein | ||
| PSPTO_RS28160 | 6190597..6191574 | - | 978 | WP_007247571.1 | IS5-like element ISPssy family transposase | ||
| PSPTO_RS28165 | 6191746..6192036 | + | 291 | WP_024677613.1 | hypothetical protein | ||
| PSPTO_RS28170 | 6192157..6192696 | + | 540 | pseudogene | RHS domain-containing protein | ||
| PSPTO_RS28175 | 6193248..6193586 | + | 339 | WP_052746235.1 | hypothetical protein | ||
| PSPTO_RS28180 | 6193769..6194122 | + | 354 | pseudogene | RHS repeat 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.| 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 (↓) |
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 |
|---|---|---|---|---|---|---|---|
| EFF00059 |
PSPTO_RS28130 | - | - | Pseudomonas syringae pv. tomato str. DC3000 | chromosome (NC_004578) | 6181106..6181624 (+) | 28872543 |
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 |
|---|