Detailed information of component protein


Summary

Component ID T6CP005730
Component protein type TssJ
T6SS ID (Type) T6SS00540 experimental (Type i3)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (169 a.a.); Nucleotide sequence (507 bp)
Reference
[1] Barret M, Egan F, Fargier E, et al. Genomic analysis of the type VI secretion systems in Pseudomonas spp.: novel clusters and putative effectors uncovered. Microbiology (Reading). 2011 Jun;157(Pt 6):1726-1739. doi: 10.1099/mic.0.048645-0. Epub 2011 Apr 7. PMID: 21474537
[2] Redondo-Nieto M, Barret M, Morrissey J, et al. Genome sequence reveals that Pseudomonas fluorescens F113 possesses a large and diverse array of systems for rhizosphere function and host interaction. BMC Genomics. 2013 Jan 25;14:54. doi: 10.1186/1471-2164-14-54. PMID: 23350846
[3] DurĂ¡n D, Bernal P, Vazquez-Arias D, et al. Pseudomonas fluorescens F113 type VI secretion systems mediate bacterial killing and adaption to the rhizosphere microbiome. Sci Rep. 2021 Mar 11;11(1):5772. doi: 10.1038/s41598-021-85218-1. PMID: 33707614
experimental Experimental investigation has been performed on this T6SS

External database links

Locus tag (Gene) PSF113_RS59805
Coordinate (Strand) 6678550..6679056 (-)
NCBI ID WP_014340883.1
RefSeq NC_016830
Uniprot ID G8Q713_PSEO1, A0A0F4XLS6_9PSED, A0A176NJM8_9PSED
KEGG ID pfe:PSF113_5795
PDB ID -

Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS-SciN PF12790.9 4.4e-36 37..151

Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-168 MIPRFLLAVATVLLLTACAKDAANPQPEEAEADTAAIELHFHAIAGLNPGATGQPAPVRVRIFELKNAATFGRSDYFALAERAQATLGADLIDQDEVLIQPGQQLSLQRDLDPATRHIGILVGYRELDQSLWRTVMNVPAREYTEYQISLDVRAVRSAVVVPPSSPAQ



Signal peptides
  • Sec/SPI: "standard" secretory signal peptides transported by the Sec translocon and cleaved by Signal Peptidase I (Lep).
  • Sec/SPII: lipoprotein signal peptides transported by the Sec translocon and cleaved by Signal Peptidase II (Lsp).
  • Tat/SPI: Tat signal peptides transported by the Tat translocon and cleaved by Signal Peptidase I (Lep).
Prediction        Probability Cleavage site Signal peptide sequence
LIPO(Sec/SPII) 0.9971 pos: 17-18. LTA-CA. MIPRFLLAVATVLLLTA



  Protein sequence: 169 a.a.    

>T6CP005730 NC_016830:c6679056-6678550 [Pseudomonas fluorescens F113] [TssJ]
MIPRFLLAVATVLLLTACAKDAANPQPEEAEADTAAIELHFHAIAGLNPGATGQPAPVRVRIFELKNAATFGRSDYFALA
ERAQATLGADLIDQDEVLIQPGQQLSLQRDLDPATRHIGILVGYRELDQSLWRTVMNVPAREYTEYQISLDVRAVRSAVV
VPPSSPAQ*

  Nucleotide sequence: 507 bp    

>T6CP005730 NC_016830:c6679056-6678550 [Pseudomonas fluorescens F113] [TssJ]
ATGATTCCCAGGTTTTTACTCGCAGTCGCTACCGTGCTTCTGCTGACGGCGTGCGCCAAGGATGCGGCCAATCCCCAGCC
CGAAGAAGCTGAGGCCGACACCGCCGCCATCGAGCTGCACTTTCACGCCATTGCCGGCCTCAACCCCGGCGCCACCGGCC
AGCCGGCCCCGGTCAGGGTGCGCATTTTCGAACTGAAAAATGCCGCCACCTTTGGCCGTTCCGATTATTTCGCCCTGGCC
GAACGGGCCCAGGCCACGCTGGGCGCCGACCTCATCGACCAGGACGAAGTGCTGATCCAGCCCGGCCAGCAACTGAGCCT
GCAACGCGACCTCGACCCGGCCACGCGGCACATCGGAATACTGGTGGGCTATCGCGAACTTGACCAGTCGCTGTGGCGCA
CGGTGATGAATGTCCCGGCGCGCGAATACACCGAATACCAGATCAGCCTCGATGTGCGCGCCGTGCGCAGCGCCGTCGTC
GTCCCCCCATCCAGCCCTGCCCAATAA