Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS01218  |
| T6SS type | Type i4b |
| Strain | Xanthomonas oryzae pv. oryzicola strain GX01 |
| Replicon (RefSeq) | chromosome (NZ_CP043403) |
| Location | 3500494..3550582 |
| Function | anti-bacterial |
| Comment | T6SS2 in Xoc GX01 was predominantly involved in competition with E.coli DH5Δ and O.oryzae, the rice endophytic bacterium |
| References | [1] Zhu PC, Li YM, Yang X, Zou HF, Zhu XL, Niu XN, Xu LH, Jiang W, Huang S, Tang JL, He YQ. et al (2020) Type VI secretion system is not required for virulence on rice but for inter-bacterial competition in Xanthomonas oryzae pv. oryzicola.. Res Microbiol. 171(2):64-73. [PudMed:31676435] |
Experimental investigation has been performed.T6SS components and genome coordinates
| Component | 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 |
| Component ID | Component | Locus tag (Gene) | Coordinate | Strand | Size (bp) | NCBI ID | Product |
|---|---|---|---|---|---|---|---|
| XOCgx_RS16430 | 3495968..3496696 | - | 729 | WP_014503414.1 | hypothetical protein | ||
| XOCgx_RS16435 | 3496725..3499559 | - | 2835 | WP_149621755.1 | hypothetical protein | ||
| XOCgx_RS16440 | 3499556..3500485 | - | 930 | WP_149621756.1 | DUF4123 domain-containing protein | ||
| T6CP015399 | TssI | XOCgx_RS16445 | 3500494..3503253 | - | 2760 | WP_149621757.1 | type VI secretion system tip protein VgrG |
| XOCgx_RS16450 | 3503346..3503699 | - | 354 | WP_014502423.1 | hypothetical protein | ||
| T6CP015400 | TssH | XOCgx_RS16455 (tssH) | 3503730..3506462 | - | 2733 | WP_149621758.1 | type VI secretion system ATPase TssH |
| T6CP015401 | TssG | XOCgx_RS16460 (tssG) | 3506548..3507639 | - | 1092 | WP_075242666.1 | type VI secretion system baseplate subunit TssG |
| T6CP015402 | TssF | XOCgx_RS16465 (tssF) | 3507603..3509438 | - | 1836 | WP_014502420.1 | type VI secretion system baseplate subunit TssF |
| T6CP015403 | TssE | XOCgx_RS16470 (tssE) | 3509441..3509929 | - | 489 | WP_075242668.1 | type VI secretion system baseplate subunit TssE |
| T6CP015404 | TssD | XOCgx_RS16475 | 3510077..3510574 | - | 498 | WP_003467612.1 | type VI secretion system tube protein Hcp |
| T6CP015405 | TssC | XOCgx_RS16480 (tssC) | 3510716..3512212 | - | 1497 | WP_014502419.1 | type VI secretion system contractile sheath large subunit |
| T6CP015406 | TssB | XOCgx_RS16485 (tssB) | 3512216..3512716 | - | 501 | WP_003467601.1 | type VI secretion system contractile sheath small subunit |
| XOCgx_RS16490 | 3512763..3513377 | - | 615 | WP_011409205.1 | hypothetical protein | ||
| T6CP015407 | TssJ | XOCgx_RS16495 (tssJ) | 3513638..3514246 | + | 609 | WP_044750743.1 | type VI secretion system lipoprotein TssJ |
| T6CP015408 | TssK | XOCgx_RS16500 (tssK) | 3514398..3515732 | + | 1335 | WP_011259947.1 | type VI secretion system baseplate subunit TssK |
| T6CP015409 | TssL | XOCgx_RS16505 | 3515729..3516520 | + | 792 | WP_014502417.1 | type IVB secretion system protein IcmH/DotU |
| XOCgx_RS16510 | 3516531..3518999 | + | 2469 | pseudogene | type VI secretion system tip protein VgrG | ||
| XOCgx_RS16515 | 3519070..3521238 | + | 2169 | WP_113343195.1 | M23 family metallopeptidase | ||
| XOCgx_RS16520 | 3521235..3521837 | + | 603 | WP_149621759.1 | hypothetical protein | ||
| XOCgx_RS16525 | 3522064..3522516 | - | 453 | pseudogene | IS5-like element ISXo1 family transposase | ||
| XOCgx_RS16530 | 3522537..3523913 | - | 1377 | WP_149622001.1 | IS5-like element ISXo4 family transposase | ||
| XOCgx_RS16535 | 3524031..3524507 | - | 477 | pseudogene | DUF2235 domain-containing protein | ||
| XOCgx_RS16540 | 3524504..3524983 | - | 480 | WP_149622002.1 | DUF3304 domain-containing protein | ||
| XOCgx_RS16545 | 3525007..3525471 | - | 465 | WP_011259972.1 | DUF3304 domain-containing protein | ||
| XOCgx_RS23525 | 3525600..3525791 | - | 192 | pseudogene | DUF2235 domain-containing protein | ||
| XOCgx_RS16555 | 3525788..3526267 | - | 480 | WP_048483957.1 | DUF3304 domain-containing protein | ||
| XOCgx_RS16560 | 3526291..3526755 | - | 465 | WP_076342640.1 | DUF3304 domain-containing protein | ||
| XOCgx_RS16565 | 3526752..3527648 | - | 897 | WP_149622003.1 | DUF4123 domain-containing protein | ||
| XOCgx_RS16570 | 3527648..3529543 | - | 1896 | WP_149621760.1 | type VI secretion system tip protein VgrG | ||
| XOCgx_RS16575 | 3529565..3531673 | - | 2109 | WP_149621761.1 | DUF2235 domain-containing protein | ||
| XOCgx_RS16585 | 3531886..3533262 | - | 1377 | WP_149621945.1 | IS5 family transposase | ||
| XOCgx_RS16590 | 3533380..3533973 | - | 594 | pseudogene | DUF3304 domain-containing protein | ||
| XOCgx_RS16600 | 3534784..3537207 | - | 2424 | WP_149621763.1 | type VI secretion system tip protein VgrG | ||
| XOCgx_RS16605 | 3537217..3538629 | - | 1413 | WP_048485621.1 | DUF2235 domain-containing protein | ||
| XOCgx_RS16610 | 3538619..3539197 | - | 579 | WP_075239675.1 | DUF3304 domain-containing protein | ||
| XOCgx_RS16615 | 3539266..3540126 | - | 861 | WP_027704078.1 | DUF4123 domain-containing protein | ||
| XOCgx_RS16620 | 3540181..3543003 | - | 2823 | WP_149621764.1 | type VI secretion system tip protein VgrG | ||
| XOCgx_RS16625 | 3543125..3543445 | - | 321 | WP_047339626.1 | hypothetical protein | ||
| T6CP015411 | TssA | XOCgx_RS16630 (tssA) | 3543948..3545021 | + | 1074 | WP_041183119.1 | type VI secretion system protein TssA |
| XOCgx_RS16635 | 3545074..3545868 | - | 795 | WP_033004820.1 | OmpA family protein | ||
| XOCgx_RS16640 (tagF) | 3545865..3546848 | - | 984 | WP_011259979.1 | type VI secretion system-associated protein TagF | ||
| T6CP015412 | TssM | XOCgx_RS16645 (tssM) | 3546845..3550582 | - | 3738 | WP_024711217.1 | type VI secretion system membrane subunit TssM |
| XOCgx_RS16650 | 3550598..3552079 | - | 1482 | WP_044750774.1 | hypothetical protein | ||
| XOCgx_RS16655 | 3552139..3552399 | - | 261 | WP_024711214.1 | PAAR domain-containing protein | ||
| XOCgx_RS16660 | 3552508..3553386 | - | 879 | WP_014502380.1 | M15 family metallopeptidase | ||
| XOCgx_RS16665 | 3553586..3554317 | + | 732 | WP_044750775.1 | hypothetical protein | ||
| XOCgx_RS16670 | 3554375..3554557 | - | 183 | WP_128415383.1 | hypothetical protein | ||
| XOCgx_RS16675 | 3554581..3554739 | + | 159 | pseudogene | transposase |
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) |
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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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