Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS00287  |
| T6SS type | Type i4b |
| Strain | Xanthomonas oryzae pv. oryzae PXO99A |
| Replicon (RefSeq) | chromosome (NC_010717) |
| Location | 3845766..3891788 |
| Function | - |
| Comment | Hcp deletion in T6SS-2 partially impaired the bacterial virulence to rice plants, whereas its deletion in T6SS-1 did not result in any significant difference in virulence to rice. |
| References | [1] Choi Y, Kim N, Mannaa M, Kim H, Park J, Jung H, Han G, Lee HH, Seo YS. et al (2020) Characterization of Type VI Secretion System in Xanthomonas oryzae pv. oryzae and Its Role in Virulence to Rice.. Plant Pathol J. 36(3):289-296. [PudMed:32547344] |
Experimental investigation has been performed.T6SS components and genome coordinates
| Component | TssB | TssC | TssD | TssE | TssF | TssG | TssH | TssI | TssJ | TssK | TssL |
| Number | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 4 | 1 | 1 | 1 |
| Component ID | Component | Locus tag (Gene) | Coordinate | Strand | Size (bp) | NCBI ID | Product |
|---|---|---|---|---|---|---|---|
| PXO_RS17540 | 3841315..3842808 | + | 1494 | WP_113341666.1 | restriction endonuclease subunit S | ||
| PXO_RS17545 | 3842842..3843150 | - | 309 | WP_041182734.1 | type II toxin-antitoxin system RelE/ParE family toxin | ||
| PXO_RS17550 | 3843157..3843420 | - | 264 | WP_011259930.1 | hypothetical protein | ||
| PXO_RS27970 | 3843874..3843995 | - | 122 | pseudogene | transposase | ||
| PXO_RS17555 | 3844152..3844682 | + | 531 | pseudogene | type VI secretion system tip protein VgrG | ||
| PXO_RS17560 | 3845201..3846223 | - | 1023 | WP_041182736.1 | hypothetical protein | ||
| PXO_RS17565 | 3846233..3848713 | - | 2481 | pseudogene | hypothetical protein | ||
| PXO_RS17570 | 3848733..3849764 | - | 1032 | WP_041182737.1 | hypothetical protein | ||
| PXO_RS17575 | 3849773..3852634 | - | 2862 | WP_012445666.1 | DUF3784 domain-containing protein | ||
| PXO_RS17580 | 3852653..3853558 | - | 906 | WP_053077061.1 | DUF4123 domain-containing protein | ||
| PXO_RS17585 | 3853500..3856262 | - | 2763 | pseudogene | type VI secretion system tip protein VgrG | ||
| PXO_RS17590 | 3856355..3856708 | - | 354 | WP_011259938.1 | hypothetical protein | ||
| T6CP002887 | TssH | PXO_RS17595 (tssH) | 3856759..3859491 | - | 2733 | WP_012445669.1 | type VI secretion system ATPase TssH |
| T6CP002888 | TssG | PXO_RS17600 (tssG) | 3859577..3860668 | - | 1092 | WP_012445670.1 | type VI secretion system baseplate subunit TssG |
| T6CP002889 | TssF | PXO_RS17605 (tssF) | 3860632..3862467 | - | 1836 | WP_011259941.1 | type VI secretion system baseplate subunit TssF |
| T6CP002890 | TssE | PXO_RS17610 (tssE) | 3862470..3862958 | - | 489 | WP_011259942.1 | type VI secretion system baseplate subunit TssE |
| T6CP002891 | TssD | PXO_RS17615 | 3863106..3863603 | - | 498 | WP_003467612.1 | type VI secretion system tube protein Hcp |
| T6CP002892 | TssC | PXO_RS17620 (tssC) | 3863745..3865241 | - | 1497 | WP_011259943.1 | type VI secretion system contractile sheath large subunit |
| T6CP002893 | TssB | PXO_RS17625 (tssB) | 3865245..3865745 | - | 501 | WP_011259944.1 | type VI secretion system contractile sheath small subunit |
| PXO_RS17630 | 3865792..3866406 | - | 615 | WP_011259945.1 | hypothetical protein | ||
| T6CP002894 | TssJ | PXO_RS17635 (tssJ) | 3866667..3867275 | + | 609 | WP_011409206.1 | type VI secretion system lipoprotein TssJ |
| T6CP002895 | TssK | PXO_RS17640 (tssK) | 3867427..3868761 | + | 1335 | WP_011259947.1 | type VI secretion system baseplate subunit TssK |
| T6CP002896 | TssL | PXO_RS17645 (icmH) | 3868758..3869549 | + | 792 | WP_181687728.1 | type IVB secretion system protein IcmH/DotU |
| T6CP002897 | TssI | PXO_RS17650 | 3869560..3872103 | + | 2544 | WP_012445675.1 | type VI secretion system tip protein VgrG |
| T6CP002898 | TssI | PXO_RS17655 | 3872128..3875022 | + | 2895 | WP_012445676.1 | calcium-binding protein |
| PXO_RS29065 | 3875019..3875834 | + | 816 | WP_128415339.1 | hypothetical protein | ||
| T6CP002899 | TssI | PXO_RS17660 | 3875857..3877290 | + | 1434 | WP_012445677.1 | type VI secretion system tip protein VgrG |
| T6CP002900 | TssI | PXO_RS26730 | 3877294..3879549 | + | 2256 | WP_012445678.1 | M23 family metallopeptidase |
| PXO_RS29070 | 3879524..3880069 | + | 546 | WP_129215583.1 | hypothetical protein | ||
| PXO_RS17670 | 3880111..3881862 | + | 1752 | pseudogene | type VI secretion system tip protein VgrG | ||
| PXO_RS17675 | 3881909..3882298 | - | 390 | WP_011259961.1 | DUF2345 domain-containing protein | ||
| PXO_RS17680 | 3882279..3884510 | - | 2232 | WP_048488806.1 | DUF2235 domain-containing protein | ||
| PXO_RS17685 | 3884510..3885100 | - | 591 | WP_115877374.1 | DUF3304 domain-containing protein | ||
| PXO_RS17690 | 3885100..3886029 | - | 930 | WP_115877375.1 | DUF2235 domain-containing protein | ||
| PXO_RS17695 | 3886068..3886664 | - | 597 | WP_041182739.1 | DUF3304 domain-containing protein | ||
| PXO_RS17700 | 3886657..3887481 | - | 825 | WP_012445684.1 | DUF4123 domain-containing protein | ||
| PXO_RS17705 | 3887478..3890300 | - | 2823 | WP_041182740.1 | type VI secretion system tip protein VgrG | ||
| PXO_RS17710 | 3890427..3890882 | - | 456 | pseudogene | OsmC family protein | ||
| PXO_RS17715 | 3890916..3891773 | - | 858 | WP_012445686.1 | pirin family protein | ||
| PXO_RS17720 | 3892005..3894077 | + | 2073 | WP_012445687.1 | carbon starvation protein A | ||
| PXO_RS17725 | 3894077..3894301 | + | 225 | WP_005926176.1 | putative selenoprotein | ||
| PXO_RS17730 | 3894839..3895543 | - | 705 | WP_027703294.1 | HAD family hydrolase | ||
| PXO_RS17735 | 3895751..3895888 | + | 138 | pseudogene | ankyrin repeat domain-containing 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) |
|---|---|---|---|---|---|---|---|---|
| REG0202 |
PXO_RS20535 | protein | Unknown | Xanthomonas oryzae pv. oryzae PXO99A | chromosome (NC_010717) | 4488457..4488843 (-) | 499576999 | Unknown (↓) |
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 |
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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 |
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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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