Detailed information of T6SS

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


Summary

T6SS ID T6SS00041 insolico
T6SS type Type i1
Strain Pseudomonas syringae pv. tomato str. DC3000
Replicon (RefSeq) chromosome (NC_004578)
Location 2796816..2829435
Function -
Comment -
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]
insolico Bioinformatics investigation has been performed.

T6SS components and genome coordinates

ComponentSfa2TssBTssCTssDTssETssFTssGTssHTssITssJTssKTssLTssM
Number1111111111111


Component ID Component Locus tag (Gene) Coordinate Strand Size (bp) NCBI ID Product
PSPTO_RS13100 2792008..2792712 - 705 WP_044393213.1 DUF1275 domain-containing protein
PSPTO_RS13105 2792754..2792981 - 228 WP_003383427.1 hypothetical protein
PSPTO_RS13110 2793112..2793453 - 342 WP_007246648.1 FKBP-type peptidyl-prolyl cis-trans isomerase
PSPTO_RS13115 2793591..2793875 - 285 WP_011104063.1 hypothetical protein
PSPTO_RS13120 2794541..2796109 + 1569 WP_011104064.1 TerC family protein
PSPTO_RS13125 2796179..2796754 - 576 WP_011104065.1 GNAT family N-acetyltransferase
PSPTO_RS13130 2796816..2797496 - 681 WP_011104066.1 hypothetical protein
PSPTO_RS13135 2797493..2800891 - 3399 WP_164923175.1 hypothetical protein
PSPTO_RS13140 2800881..2801763 - 883 pseudogene DUF4123 domain-containing protein
T6CP000334 TssI PSPTO_RS13145 2801756..2803798 - 2043 WP_011104070.1 type VI secretion system tip protein VgrG
T6CP008396 TssD PSPTO_RS13150 2803874..2804389 - 516 WP_007246961.1 Hcp family type VI secretion system effector
PSPTO_RS13155 (tssA) 2804890..2805867 + 978 pseudogene type VI secretion system protein TssA
PSPTO_RS13160 2806011..2806988 - 978 WP_007247571.1 IS5-like element ISPssy family transposase
PSPTO_RS13165 2807051..2807629 + 579 pseudogene type VI secretion system domain-containing protein
T6CP000335 TssB PSPTO_RS13170 (tssB) 2807665..2808165 + 501 WP_011104071.1 type VI secretion system contractile sheath small subunit
T6CP000336 TssC PSPTO_RS13175 (tssC) 2808195..2809670 + 1476 WP_011104072.1 type VI secretion system contractile sheath large subunit
T6CP008397 TssE PSPTO_RS13180 (tssE) 2809686..2810093 + 408 WP_011104073.1 type VI secretion system baseplate subunit TssE
T6CP000337 TssF PSPTO_RS13185 (tssF) 2810191..2811978 + 1788 WP_011104074.1 type VI secretion system baseplate subunit TssF
T6CP000338 TssG PSPTO_RS13190 (tssG) 2811942..2812949 + 1008 WP_011104075.1 type VI secretion system baseplate subunit TssG
T6CP000339 TssH PSPTO_RS13195 (tssH) 2812959..2815562 + 2604 WP_011104076.1 type VI secretion system ATPase TssH
T6CP012435 Sfa2 PSPTO_RS13200 2815564..2817093 + 1530 WP_011104077.1 sigma-54-dependent Fis family transcriptional regulator
T6CP000340 TssJ PSPTO_RS13205 (tssJ) 2817337..2817828 + 492 WP_007246952.1 type VI secretion system lipoprotein TssJ
T6CP000341 TssK PSPTO_RS13210 (tssK) 2817825..2819156 + 1332 WP_010213774.1 type VI secretion system baseplate subunit TssK
T6CP000342 TssL PSPTO_RS13215 2819138..2820028 + 891 WP_046463302.1 type IVB secretion system protein IcmH/DotU
T6CP000343 TssM PSPTO_RS13220 (tssM) 2820042..2823548 + 3507 WP_011104079.1 type VI secretion system membrane subunit TssM
PSPTO_RS13225 (phnC) 2823826..2824659 + 834 WP_011104080.1 phosphonate ABC transporter ATP-binding protein
PSPTO_RS13230 (phnD) 2824697..2825707 + 1011 WP_007246947.1 phosphonate ABC transporter substrate-binding protein
PSPTO_RS13235 (phnE) 2825735..2826523 + 789 WP_007246946.1 phosphonate ABC transporter, permease protein PhnE
PSPTO_RS13240 (phnF) 2826562..2827281 + 720 WP_011104081.1 phosphonate metabolism transcriptional regulator PhnF
PSPTO_RS13245 (phnG) 2827296..2827760 + 465 WP_007246944.1 phosphonate C-P lyase system protein PhnG
PSPTO_RS13250 (phnH) 2827760..2828356 + 597 WP_011104082.1 phosphonate C-P lyase system protein PhnH
PSPTO_RS13255 2828356..2829435 + 1080 WP_011104083.1 carbon-phosphorus lyase complex subunit PhnI
PSPTO_RS13260 2829432..2830319 + 888 WP_011104084.1 alpha-D-ribose 1-methylphosphonate 5-phosphate C-P-lyase PhnJ
PSPTO_RS13265 (phnK) 2830316..2831137 + 822 WP_011104085.1 phosphonate C-P lyase system protein PhnK
PSPTO_RS13270 (phnL) 2831170..2831886 + 717 WP_011104086.1 phosphonate C-P lyase system protein PhnL
PSPTO_RS13275 2831880..2833025 + 1146 WP_011104087.1 alpha-D-ribose 1-methylphosphonate 5-triphosphate diphosphatase
PSPTO_RS13280 (phnN) 2833025..2833591 + 567 WP_011104088.1 phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN
PSPTO_RS13285 (phnP) 2833582..2834331 + 750 WP_011104089.1 phosphonate metabolism protein PhnP
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

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