Detailed information of T6SS

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


Summary

T6SS ID T6SS00042 experimental
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 Experimental investigation has been performed.

T6SS components and genome coordinates

ComponentFHAPAARSfa2Stk1Stp1TssATssBTssCTssDTssETssFTssGTssHTssITssJTssKTssLTssM
Number111111111111121111


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
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)
REG0096 experimental PSPTO_RS08845 (relA) protein (p)ppGpp regulatory pathway Pseudomonas syringae pv. tomato str. DC3000 chromosome (NC_004578) 1863879..1866122 (+) 494457621 T6SS transcripts (↓)
REG0097 experimental PSPTO_RS00410 (spoT) protein (p)ppGpp regulatory pathway Pseudomonas syringae pv. tomato str. DC3000 chromosome (NC_004578) 94805..96910 (-) 492171753 T6SS transcripts (↓)
REG0098 experimental PSPTO_RS04545 (fpRel) protein (p)ppGpp regulatory pathway Pseudomonas syringae pv. tomato str. DC3000 chromosome (NC_004578) 927082..927900 (+) 499415849 T6SS transcripts (↓)
REG0099 experimental PSPTO_RS28060 (Sfa) protein Global regulator Pseudomonas syringae pv. tomato str. DC3000 chromosome (NC_004578) 6165047..6166564 (-) 499418021 T6SS transcripts (↓)

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
EFF00059 experimental PSPTO_RS28130 - - Pseudomonas syringae pv. tomato str. DC3000 chromosome (NC_004578) 6181106..6181624 (+) 28872543

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

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