Detailed information of T6SS

Note: only experimentally validated proteins are displayed in the graph.


Summary

T6SS ID T6SS00035 experimental
T6SS type Type i3
Strain Pseudomonas protegens Pf-5
Replicon (RefSeq) chromosome (NC_004129)
Location 6897920..6930515
Function anti-bacterial; effector translocation
Comment T6-secretion of a peptidoglycan amidase enzyme (antibacterial activity of T6SS implied).
References
[1] Loper JE et al (2012) Comparative Genomics of Plant-Associated Pseudomonas spp.: Insights into Diversity and Inheritance of Traits Involved in Multitrophic Interactions. PLoS Genet. 8(7):e1002784. [PudMed:22792073]
[2] Russell AB et al (2012) A widespread bacterial type VI secretion effector superfamily identified using a heuristic approach. Cell Host Microbe. 11(5):538-49. [PudMed:22607806]
[3] Hassan KA et al (2010) Inactivation of the GacA response regulator in Pseudomonas fluorescens Pf-5 has far-reaching transcriptomic consequences. Environ Microbiol. 12(4):899-915. [PudMed:20089046]
[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]
[5] Whitney JC et al (2013) Identification, structure and function of a novel type VI secretion peptidoglycan glycoside hydrolase effector-immunity pair. J Biol Chem. 288(37):26616-24. [PudMed:23878199]
experimental Experimental investigation has been performed.

T6SS components and genome coordinates

ComponentFHAPAARPpkAPppATagFTagQTagRTagSTagTTssATssBTssCTssDTssETssFTssGTssHTssITssJTssKTssLTssM
Number1111111111111111111111


Component ID Component Locus tag (Gene) Coordinate Strand Size (bp) NCBI ID Product
PFL_RS30780 6893219..6894619 + 1401 WP_011064240.1 HDOD domain-containing protein
PFL_RS30785 6894678..6895061 - 384 WP_015637475.1 hypothetical protein
T6CP012428 TagQ PFL_RS30790 6895202..6896131 - 930 WP_011064242.1 hypothetical protein
T6CP012430 TagR PFL_RS30795 6896215..6897927 - 1713 WP_011064243.1 SUMF1/EgtB/PvdO family nonheme iron enzyme
T6CP012431 TagS PFL_RS30800 6897920..6899122 - 1203 WP_011064244.1 ABC transporter permease
T6CP012432 TagT PFL_RS30805 6899122..6899838 - 717 WP_011064245.1 ABC transporter ATP-binding protein
T6CP012429 PpkA PFL_RS30810 6899838..6902921 - 3084 WP_011064246.1 serine/threonine-protein kinase
T6CP012433 PppA PFL_RS30815 6902924..6903658 - 735 WP_011064247.1 protein phosphatase 2C domain-containing protein
T6CP012434 TagF PFL_RS30820 (tagF) 6903659..6904312 - 654 WP_011064248.1 type VI secretion system-associated protein TagF
T6CP000275 TssM PFL_RS30825 (tssM) 6904309..6907815 - 3507 WP_011064249.1 type VI secretion system membrane subunit TssM
T6CP000276 TssL PFL_RS30830 6907812..6909137 - 1326 WP_011064250.1 DotU family type VI secretion system protein
T6CP000277 TssK PFL_RS30835 (tssK) 6909144..6910478 - 1335 WP_011064251.1 type VI secretion system baseplate subunit TssK
T6CP000278 TssJ PFL_RS30840 (tssJ) 6910494..6911000 - 507 WP_011064252.1 type VI secretion system lipoprotein TssJ
T6CP011428 FHA PFL_RS30845 (tagH) 6911065..6912549 - 1485 WP_011064253.1 type VI secretion system-associated FHA domain protein TagH
T6CP000279 TssA PFL_RS30850 (tssA) 6912942..6913961 + 1020 WP_011064254.1 type VI secretion system protein TssA
T6CP000280 TssB PFL_RS30855 (tssB) 6914043..6914558 + 516 WP_011064255.1 type VI secretion system contractile sheath small subunit
T6CP000281 TssC PFL_RS30860 (tssC) 6914575..6916068 + 1494 WP_011064256.1 type VI secretion system contractile sheath large subunit
T6CP000282 TssD PFL_RS30865 6916187..6916675 + 489 WP_011064257.1 type VI secretion system tube protein Hcp
T6CP000283 TssE PFL_RS30870 (tssE) 6916836..6917351 + 516 WP_011064258.1 type VI secretion system baseplate subunit TssE
T6CP000284 TssF PFL_RS30875 (tssF) 6917348..6919207 + 1860 WP_011064259.1 type VI secretion system baseplate subunit TssF
T6CP000285 TssG PFL_RS30880 (tssG) 6919171..6920223 + 1053 WP_011064260.1 type VI secretion system baseplate subunit TssG
T6CP000286 TssH PFL_RS30885 (tssH) 6920216..6922891 + 2676 WP_011064261.1 type VI secretion system ATPase TssH
T6CP000287 TssI PFL_RS30890 6923022..6924959 + 1938 WP_011064262.1 type VI secretion system tip protein VgrG
PFL_RS30895 6924978..6925403 + 426 WP_011064263.1 DUF1795 domain-containing protein
T6CP011355 PAAR PFL_RS30900 6925413..6929873 + 4461 WP_011064264.1 RHS domain-containing protein
PFL_RS30905 6929889..6930515 + 627 WP_011064265.1 hypothetical protein
PFL_RS30910 6930535..6930798 - 264 WP_041120412.1 hypothetical protein
PFL_RS30915 6930853..6931287 - 435 WP_011064267.1 DcrB-related protein
PFL_RS30920 6931399..6931770 - 372 WP_041120416.1 hypothetical protein
PFL_RS30925 6931758..6932282 - 525 WP_019093146.1 hypothetical protein
PFL_RS30930 6932447..6932722 - 276 WP_011064269.1 HU family DNA-binding protein
PFL_RS30935 6932912..6934060 - 1149 WP_011064270.1 FAD-dependent oxidoreductase
PFL_RS30940 6934103..6934270 - 168 WP_011064271.1 rubredoxin
PFL_RS30945 6934486..6935049 + 564 WP_011064272.1 chorismate lyase
flank 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 Experimental investigation has been performed.
insolico Bioinformatics investigation has been performed.
Regulator ID Locus tag (Gene) Regulator type Regulatory pathway Organism                 Replicon (Accession) Coordinates (Strand) NCBI ID Target (Regulation)
REG0091 experimental PFL_RS17995 (gacA/uvrY/SirA) protein TCS-RR Pseudomonas protegens Pf-5 chromosome (NC_004129) 4110513..4111154 (-) 499374263 T6SS transcripts (↓)
REG0092 experimental PFL_RS30815 (pppA) protein Tpp Pseudomonas protegens Pf-5 chromosome (NC_004129) 6902924..6903658 (-) 499376669 Hcp secretion (↑)

experimental Experimental investigation has been performed.
insolico Bioinformatics investigation has been performed.
Effector ID Locus tag (Gene) Classification Cognate immunity protein Organism                 Replicon (Accession) Coordinates (Strand) NCBI ID
EFF01474 experimental PFL_6096 (rhsA) Tde IMU00300 experimental Pseudomonas protegens Pf-5 chromosome (NC_004129) 6925413..6929873 (+) 68347678
EFF00045 experimental PFL_5498 (Tae3) Tae IMU00073 experimental Pseudomonas protegens Pf-5 chromosome (NC_004129) 6278373..6278744 (+) 70732799
EFF00434 experimental PFL_3037 (Tge2) Tge IMU00074 experimental Pseudomonas protegens Pf-5 chromosome (NC_004129) 3502760..3503293 (-) 70730402
EFF01475 experimental PFL_6209 (Tne2) Tne IMU00301 experimental Pseudomonas protegens Pf-5 chromosome (NC_004129) 7049182..7050408 (+) 68347791

experimental Experimental investigation has been performed.
insolico Bioinformatics investigation has been performed.
Immunity protein ID Locus tag (Gene) Cognate effector Organism                 Replicon (Accession) Coordinates (Strand) NCBI ID
IMU00073 experimental PFL_5499 (Tai3) EFF00045 experimental Pseudomonas protegens Pf-5 chromosome (NC_004129) 6278755..6279204 (+) 70732800
IMU00074 experimental PFL_3036 (Tgi2) EFF00434 experimental Pseudomonas protegens Pf-5 chromosome (NC_004129) 3502296..3502766 (-) 70730401
IMU00300 experimental PFL_6097 (rhsI) EFF01474 experimental Pseudomonas protegens Pf-5 chromosome (NC_004129) 6929889..6930515 (+) 70733380
IMU00301 experimental PFL_6210 (Tni2) EFF01475 experimental Pseudomonas protegens Pf-5 chromosome (NC_004129) 7050414..7050875 (+) 70733493

experimental Experimental investigation has been performed.
Accessory protein ID Locus tag (Gene) Type             Organism                 Replicon (Accession) Coordinates (Strand) NCBI ID Related structure protein Related effector
ACP00012 experimental PFL_6095 (eagR1) adaptor Pseudomonas protegens Pf-5 chromosome (NC_004129) 6924978..6925403 (+) 499376685 - PFL_6096 (RhsA)
ACP00013 experimental PFL_6099 (eagT2) adaptor Pseudomonas protegens Pf-5 chromosome (NC_004129) 6930853..6931287 (-) 499376689 - PFL_6209 (Tne2)