Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS00258  |
| T6SS type | Type i3 |
| Strain | Yersinia pseudotuberculosis YPIII |
| Replicon (RefSeq) | chromosome (NC_010465) |
| Location | 1619849..1653371 |
| Function | anti-bacterial |
| Comment | The secretion of YPK_0952 was dramatically diminished with deletion of clpV3, but not with deletion of clpV1, clpV2,or clpV4, further indicating that YPK_0952 is a T6SS effector mainly associated with T6SS-3. |
| References | [1] Song L, Pan J, Yang Y, Zhang Z, Cui R, Jia S, Wang Z, Yang C, Xu L, Dong TG, Wang Y, Shen X. et al (2021) Contact-independent killing mediated by a T6SS effector with intrinsic cell-entry properties.. Nat Commun. 12(1):423. [PudMed:33462232] [2] Zhang W et al (2011) Modulation of a thermoregulated type VI secretion system by AHL-dependent quorum sensing in Yersinia pseudotuberculosis. Arch Microbiol. 193(5):351-63. [PudMed:21298257] [3] Zhang W et al (2012) A type VI secretion system regulated by OmpR in Yersinia pseudotuberculosis functions to maintain intracellular pH homeostasis. Environ Microbiol. 15(2):557-69. [PudMed:23094603] |
Experimental investigation has been performed.T6SS components and genome coordinates
| Component | PAAR | TagJ | TagL | TssA | TssB | TssC | TssD | TssE | TssF | TssG | TssH | TssI | TssJ | TssK | TssL | TssM |
| Number | 1 | 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 |
|---|---|---|---|---|---|---|---|
| YPK_RS07385 (mltB) | 1616059..1617153 | + | 1095 | WP_012303905.1 | lytic murein transglycosylase B | ||
| YPK_RS07390 | 1618395..1618997 | + | 603 | WP_011192718.1 | LuxR family transcriptional regulator | ||
| YPK_RS07395 | 1619370..1619852 | - | 483 | WP_002215321.1 | DcrB-related protein | ||
| T6CP011650 | TagL | YPK_RS07400 | 1619849..1621531 | - | 1683 | WP_012104863.1 | OmpA family protein |
| YPK_RS07405 | 1621532..1622233 | - | 702 | WP_012303906.1 | hypothetical protein | ||
| YPK_RS07410 | 1622230..1623567 | - | 1338 | WP_012104865.1 | glycosyl transferase | ||
| YPK_RS07415 | 1623607..1624638 | - | 1032 | WP_011192714.1 | fimbrial protein | ||
| T6CP002544 | TssA | YPK_RS07420 | 1624645..1625838 | - | 1194 | WP_011192713.1 | ImpA family type VI secretion system protein |
| T6CP002545 | TssG | YPK_RS07425 (tssG) | 1625937..1626962 | - | 1026 | WP_012303907.1 | type VI secretion system baseplate subunit TssG |
| T6CP002546 | TssF | YPK_RS07430 (tssF) | 1626962..1628842 | - | 1881 | WP_002211582.1 | type VI secretion system baseplate subunit TssF |
| T6CP002547 | TssH | YPK_RS07435 (tssH) | 1629626..1632283 | + | 2658 | WP_012104866.1 | type VI secretion system ATPase TssH |
| YPK_RS07440 | 1632494..1633039 | + | 546 | WP_002211580.1 | type 1 fimbrial protein | ||
| YPK_RS07445 | 1633196..1633957 | + | 762 | WP_012303908.1 | fimbria/pilus periplasmic chaperone | ||
| YPK_RS21995 | 1634085..1636757 | + | 2673 | WP_012303909.1 | fimbrial biogenesis outer membrane usher protein | ||
| YPK_RS07460 | 1636742..1637350 | + | 609 | WP_011192708.1 | type 1 fimbrial protein | ||
| T6CP002548 | TssB | YPK_RS07465 (tssB) | 1637456..1637980 | + | 525 | WP_002211575.1 | type VI secretion system contractile sheath small subunit |
| T6CP002549 | TssC | YPK_RS07470 (tssC) | 1638004..1639506 | + | 1503 | WP_002211574.1 | type VI secretion system contractile sheath large subunit |
| T6CP002550 | TssD | YPK_RS07475 | 1639839..1640324 | + | 486 | WP_002211573.1 | type VI secretion system tube protein Hcp |
| T6CP002551 | TssJ | YPK_RS07480 (tssJ) | 1640598..1641137 | + | 540 | WP_002211572.1 | type VI secretion system lipoprotein TssJ |
| T6CP002552 | TssK | YPK_RS07485 (tssK) | 1641141..1642490 | + | 1350 | WP_002211571.1 | type VI secretion system baseplate subunit TssK |
| T6CP002553 | TssL | YPK_RS07490 (tssL) | 1642487..1643863 | + | 1377 | WP_011192706.1 | type VI secretion system protein TssL, long form |
| T6CP002554 | TssM | YPK_RS07495 (tssM) | 1643872..1647699 | + | 3828 | WP_011192705.1 | type VI secretion system membrane subunit TssM |
| T6CP002555 | TssI | YPK_RS07500 | 1648026..1650794 | + | 2769 | WP_012303910.1 | type VI secretion system Vgr family protein |
| T6CP011649 | PAAR | YPK_RS07505 | 1650893..1651153 | + | 261 | WP_002209684.1 | PAAR domain-containing protein |
| YPK_RS07510 | 1651159..1652001 | + | 843 | WP_002354537.1 | TagK domain-containing protein | ||
| T6CP012755 | TagJ | YPK_RS07515 | 1652021..1652827 | + | 807 | WP_012303911.1 | virulence protein SciE type |
| T6CP002556 | TssE | YPK_RS07520 | 1652892..1653371 | + | 480 | WP_002209686.1 | type VI secretion system baseplate subunit TssE |
| YPK_RS07525 | 1653396..1653743 | + | 348 | WP_002209687.1 | hypothetical protein | ||
| YPK_RS07530 | 1653818..1654159 | - | 342 | WP_002209688.1 | alkylphosphonate utilization protein | ||
| YPK_RS07535 | 1654535..1656574 | - | 2040 | WP_012303912.1 | DUF2207 domain-containing protein | ||
| YPK_RS07540 | 1656579..1657121 | - | 543 | WP_002209691.1 | LemA family protein | ||
| YPK_RS07550 | 1657738..1658205 | + | 468 | WP_012303913.1 | 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.| Regulator ID | Locus tag (Gene) | Regulator type | Regulatory pathway | Organism | Replicon (Accession) | Coordinates (Strand) | NCBI ID | Target (Regulation) |
|---|
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 |
|---|---|---|---|---|---|---|---|
| EFF01873 |
YPK_RS04780 | Tde | - | Yersinia pseudotuberculosis YPIII | chromosome (NC_010465) | 1067938..1069470 (+) | 499506274 |
| EFF01874 |
YPK_0954 (Tce1) | Tde | IMU00376 |
Yersinia pseudotuberculosis YPIII | chromosome (NC_010465) | 1069948..1070205 (+) | 488156855 |
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 |
|---|---|---|---|---|---|---|---|---|
| ACP00014 |
YPK_0782 (btuB) | chaperone | Yersinia pseudotuberculosis YPIII | chromosome (NC_010465) | 1069948..1070205 (+) | 488156855 | - | YPK_0954 (Tce1) |
| ACP00015 |
YPK_2649 (ompF) | chaperone | Yersinia pseudotuberculosis YPIII | chromosome (NC_010465) | 2911078..2912160 (+) | 501261276 | - | YPK_0954 (Tce1) |
| ACP00016 |
YPK_2956 (tonB) | chaperone | Yersinia pseudotuberculosis YPIII | chromosome (NC_010465) | 3254339..3255631 (-) | 488139530 | - | YPK_0954 (Tce1) |