Detailed information of T6SS

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


Summary

T6SS ID T6SS00014 experimental
T6SS type Type i4b
Strain Pseudomonas putida KT2440
Replicon (RefSeq) chromosome (NC_002947)
Location 3470069..3499780
Function anti-bacterial
Comment The K1-T6SS is anti-bacterial and can secrete HCP1.
References
[1] 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]
[2] 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]
[3] Bernal P, Allsopp LP, Filloux A, Llamas MA. et al (2017) The Pseudomonas putida T6SS is a plant warden against phytopathogens.. ISME J. 11(4):972-987. [PudMed:28045455]
experimental Experimental investigation has been performed.

T6SS components and genome coordinates

ComponentTssATssBTssCTssDTssETssFTssGTssHTssITssJTssKTssLTssM
Number1111111111112


Component ID Component Locus tag (Gene) Coordinate Strand Size (bp) NCBI ID Product
PP_RS15950 3466349..3466900 - 552 WP_049586097.1 YbhB/YbcL family Raf kinase inhibitor-like protein
PP_RS15955 3466949..3467257 - 309 WP_019438461.1 hypothetical protein
PP_RS15960 3467339..3468637 - 1299 WP_020190937.1 MFS transporter
PP_RS15965 3469064..3469939 + 876 WP_010953981.1 AEC family transporter
PP_RS15970 3470072..3472489 - 2418 WP_049586093.1 TonB-dependent receptor
PP_RS15975 3472639..3473601 - 963 WP_049586091.1 FecR domain-containing protein
PP_RS15980 3473601..3474107 - 507 WP_010953984.1 sigma-70 family RNA polymerase sigma factor
PP_RS15985 3474196..3476712 - 2517 WP_010953985.1 excinuclease ABC subunit UvrA
T6CP009578 TssA PP_RS15990 (tssA) 3476880..3477965 - 1086 WP_010953986.1 type VI secretion system protein TssA
T6CP009579 TssD PP_RS15995 3478061..3478579 - 519 WP_049586088.1 type VI secretion system tube protein Hcp
T6CP000096 TssM PP_RS16000 (tssM) 3478723..3481218 - 2496 WP_010953988.1 type VI secretion system membrane subunit TssM
PP_RS16005 (tagF) 3481215..3482123 - 909 WP_049586086.1 type VI secretion system-associated protein TagF
T6CP000097 TssM PP_RS16010 3482120..3485923 - 3804 WP_010953989.1 hypothetical protein
T6CP009581 TssL PP_RS16015 (icmH) 3485954..3486670 - 717 WP_010953990.1 type IVB secretion system protein IcmH/DotU
T6CP000098 TssK PP_RS16020 (tssK) 3486667..3488010 - 1344 WP_010953991.1 type VI secretion system baseplate subunit TssK
T6CP000099 TssJ PP_RS16025 (tssJ) 3488007..3488729 - 723 WP_004576638.1 type VI secretion system lipoprotein TssJ
T6CP000100 TssH PP_RS16030 (tssH) 3488754..3491351 - 2598 WP_049586082.1 type VI secretion system ATPase TssH
T6CP000101 TssG PP_RS16035 (tssG) 3491348..3492418 - 1071 WP_003248350.1 type VI secretion system baseplate subunit TssG
T6CP000102 TssF PP_RS16040 (tssF) 3492382..3494202 - 1821 WP_010953993.1 type VI secretion system baseplate subunit TssF
T6CP000103 TssE PP_RS16045 (tssE) 3494202..3494684 - 483 WP_003248355.1 type VI secretion system baseplate subunit TssE
T6CP000104 TssC PP_RS16050 (tssC) 3494711..3496213 - 1503 WP_003248356.1 type VI secretion system contractile sheath large subunit
T6CP000105 TssB PP_RS16055 (tssB) 3496228..3496767 - 540 WP_049586301.1 type VI secretion system contractile sheath small subunit
PP_RS16060 3496832..3497581 - 750 WP_049586080.1 hypothetical protein
PP_RS16065 3498302..3498853 - 552 WP_003248365.1 hypothetical protein
PP_RS16070 3499064..3499783 + 720 pseudogene ADP-ribosylglycohydrolase family protein
PP_RS16075 3500053..3500325 - 273 WP_061405645.1 hypothetical protein
PP_RS28435 3500335..3500803 - 469 pseudogene hypothetical protein
PP_RS16085 3501267..3501455 + 189 pseudogene type VI secretion system tip protein VgrG
PP_RS16090 3501614..3502312 + 699 WP_003248379.1 hypothetical protein
PP_RS16095 3502346..3502605 + 260 pseudogene hypothetical protein
PP_RS28395 3502579..3502684 - 106 pseudogene hypothetical protein
PP_RS16105 3502704..3503015 - 312 WP_049586073.1 hypothetical protein
PP_RS16110 3503425..3503814 - 390 WP_079732522.1 reverse transcriptase
PP_RS16115 3503869..3504185 - 317 pseudogene hypothetical protein
PP_RS16120 3504275..3504571 - 297 WP_010953996.1 hypothetical 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)
REG0074 experimental PP_4373 (FleQ) protein c-di-GMP regulatory pathway Pseudomonas putida KT2440 chromosome (NC_002947) 4963882..4965357 (-) 26991062 K1-T6SS (hcp1) expression (↑)
REG0075 experimental PP_0952 (RopN) protein c-di-GMP regulatory pathway Pseudomonas putida KT2440 chromosome (NC_002947) 1094567..1096060 (-) 26987688 PP_4373 (FleQ) (↑)
REG0076 experimental PP_0914 (BifA) protein c-di-GMP regulatory pathway Pseudomonas putida KT2440 chromosome (NC_002947) 1055990..1058071 (-) 26987650 the levels of c-di-GMP (↓)

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
EFF01838 experimental PP_3108 (Tke2) Tde IMU00355 experimental Pseudomonas putida KT2440 chromosome (NC_002947) 3511333..3515490 (+) 499256461
EFF01837 experimental PP_3089 (hcp1) - - Pseudomonas putida KT2440 chromosome (NC_002947) 3478061..3478579 (-) 898330886

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
IMU00355 experimental PP_5576 (Tki2) EFF01838 experimental Pseudomonas putida KT2440 chromosome (NC_002947) 3515484..3515960 (+) 898330862

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
ACP00009 experimental PP_RS16060 (tagB1) structure affiliated protein Pseudomonas putida KT2440 chromosome (NC_002947) 3496832..3497581 (-) 898330878 PP_RS15990 (TssA) -