Detailed information of T6SS
Note: only experimentally validated proteins are displayed in the graph.
Summary
| T6SS ID | T6SS00015  |
| T6SS type | Type i1 |
| Strain | Pseudomonas putida KT2440 |
| Replicon (RefSeq) | chromosome (NC_002947) |
| Location | 4590927..4618219 |
| Function | anti-bacterial |
| Comment | The K1-T6SS is anti-bacterial and can secrete HCP1. |
| References | [1] 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] [2] 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] [3] 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 investigation has been performed.T6SS components and genome coordinates
| Component | PAAR | TssB | TssD | TssE | TssF | TssG | TssJ | TssK | TssL | TssM |
| Number | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 |
| Component ID | Component | Locus tag (Gene) | Coordinate | Strand | Size (bp) | NCBI ID | Product |
|---|---|---|---|---|---|---|---|
| PP_RS21100 | 4586132..4587814 | - | 1683 | WP_010954856.1 | AMP-binding protein | ||
| PP_RS21105 | 4588136..4589299 | + | 1164 | WP_003251317.1 | isovaleryl-CoA dehydrogenase | ||
| PP_RS21110 | 4589319..4590926 | + | 1608 | WP_010954858.1 | propionyl-CoA carboxylase | ||
| PP_RS21115 | 4590930..4591745 | + | 816 | WP_003251320.1 | gamma-carboxygeranoyl-CoA hydratase | ||
| PP_RS21120 | 4591742..4593694 | + | 1953 | WP_010954859.1 | acetyl/propionyl/methylcrotonyl-CoA carboxylase subunit alpha | ||
| PP_RS21125 | 4593993..4594697 | - | 705 | WP_010954860.1 | LexA family transcriptional regulator | ||
| PP_RS21130 | 4594785..4595084 | + | 300 | WP_010954861.1 | hypothetical protein | ||
| PP_RS21135 | 4595533..4596048 | + | 516 | WP_010954862.1 | DUF4880 domain-containing protein | ||
| T6CP000107 | TssM | PP_RS21140 (tssM) | 4596182..4599808 | - | 3627 | WP_010954863.1 | type VI secretion system membrane subunit TssM |
| PP_RS21145 (tssA) | 4599805..4601271 | - | 1467 | WP_010954864.1 | type VI secretion system protein TssA | ||
| PP_RS21150 (tagO) | 4601259..4601891 | - | 633 | WP_010954865.1 | type VI secretion system-associated protein TagO | ||
| T6CP000108 | TssB | PP_RS21155 (tssB) | 4602166..4602669 | + | 504 | WP_010954866.1 | type VI secretion system contractile sheath small subunit |
| PP_RS21160 (tssC) | 4602687..4604174 | + | 1488 | pseudogene | type VI secretion system contractile sheath large subunit | ||
| T6CP009582 | TssE | PP_RS21165 (tssE) | 4604171..4604581 | + | 411 | WP_010954867.1 | type VI secretion system baseplate subunit TssE |
| T6CP000109 | TssF | PP_RS21170 (tssF) | 4604585..4606351 | + | 1767 | WP_010954868.1 | type VI secretion system baseplate subunit TssF |
| T6CP000110 | TssG | PP_RS21175 (tssG) | 4606315..4607331 | + | 1017 | WP_010954869.1 | type VI secretion system baseplate subunit TssG |
| T6CP000111 | TssJ | PP_RS21180 (tssJ) | 4607328..4608125 | + | 798 | WP_010954870.1 | type VI secretion system lipoprotein TssJ |
| T6CP000112 | TssK | PP_RS21185 (tssK) | 4608175..4609512 | + | 1338 | WP_003251351.1 | type VI secretion system baseplate subunit TssK |
| T6CP000113 | TssL | PP_RS21190 (icmH) | 4609514..4610389 | + | 876 | WP_051122586.1 | type IVB secretion system protein IcmH/DotU |
| T6CP009583 | TssD | PP_RS21195 | 4610523..4611038 | + | 516 | WP_010954872.1 | Hcp family type VI secretion system effector |
| PP_RS21200 (tssI) | 4611113..4613097 | + | 1985 | pseudogene | type VI secretion system tip protein VgrG | ||
| PP_RS21205 | 4613145..4613576 | + | 432 | WP_010954873.1 | DUF1795 domain-containing protein | ||
| T6CP011403 | PAAR | PP_RS21210 | 4613630..4618222 | + | 4593 | WP_010954874.1 | RHS domain-containing protein |
| PP_RS21215 | 4618246..4618731 | + | 486 | WP_061405684.1 | SMI1/KNR4 family protein | ||
| PP_RS28360 | 4619179..4619610 | + | 432 | WP_164721822.1 | hypothetical protein | ||
| PP_RS21225 | 4619633..4619913 | + | 281 | pseudogene | transposase | ||
| PP_RS21230 | 4620991..4621407 | + | 417 | WP_061405685.1 | putative phosphotriesterase |
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 |
|---|
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 |
|---|