Detailed information of component protein


Summary

Component ID T6CP005731
Component protein type TssA
T6SS ID (Type) T6SS00540 experimental (Type i3)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (346 a.a.); Nucleotide sequence (1038 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] Durán 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_RS59815
Coordinate (Strand) 6681052..6682089 (+)
NCBI ID WP_014340885.1
RefSeq NC_016830
Uniprot ID G8Q715_PSEF3
KEGG ID pfe:PSF113_5797
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
ImpA_N PF06812.14 2.8e-32 7..130
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-345 VDVPLLLAAVSATSPCGEDLEYDADFLRLERDSRGQPERSMGDSILPAEPPEWRSIQQQSLDLLQRSKDLRITHFLLQSSLALEGLPGMARVLTLISELLKQYWAELHPRLDADDDNDPTVRINALAGLTSDITIRLLRESILARSRTFGAVSLRAAANASGLQSFPDENLGAEQLAGALLDSDPEQLEITRAALLEARSAAEAIEQQVSDQVGSAQGVDLGPLKQPLKMALQILGQFAPQSGDSALSDPVSDDSAAPTEYASAPSTPRNTSTSTVSGEINNRDDVLRSLDRILAYYTRHEPSSPLPVLLNRAKNLVHADFAAIVRNLIPDGMSQFENLRGPDSE


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) 0.5522 pos: 15-16. TSP-CG. VDVPLLLAAVSATSP


  Protein sequence: 346 a.a.    

>T6CP005731 NC_016830:6681052-6682089 [Pseudomonas fluorescens F113] [TssA]
VDVPLLLAAVSATSPCGEDLEYDADFLRLERDSRGQPERSMGDSILPAEPPEWRSIQQQSLDLLQRSKDLRITHFLLQSS
LALEGLPGMARVLTLISELLKQYWAELHPRLDADDDNDPTVRINALAGLTSDITIRLLRESILARSRTFGAVSLRAAANA
SGLQSFPDENLGAEQLAGALLDSDPEQLEITRAALLEARSAAEAIEQQVSDQVGSAQGVDLGPLKQPLKMALQILGQFAP
QSGDSALSDPVSDDSAAPTEYASAPSTPRNTSTSTVSGEINNRDDVLRSLDRILAYYTRHEPSSPLPVLLNRAKNLVHAD
FAAIVRNLIPDGMSQFENLRGPDSE*

  Nucleotide sequence: 1038 bp    

>T6CP005731 NC_016830:6681052-6682089 [Pseudomonas fluorescens F113] [TssA]
GTGGATGTGCCTTTGTTGCTCGCCGCCGTTTCCGCGACTTCGCCGTGTGGTGAAGATCTGGAATATGACGCGGATTTCTT
GCGCCTGGAACGCGACTCCCGGGGTCAGCCCGAACGTAGCATGGGCGATTCGATCCTGCCTGCCGAGCCTCCTGAATGGC
GCAGCATCCAGCAGCAGAGCCTGGACTTGCTGCAACGCAGCAAAGACCTGCGCATCACCCATTTCCTGTTGCAAAGCTCC
CTGGCCCTCGAAGGCCTGCCGGGCATGGCCCGTGTGCTGACGCTGATCAGCGAACTGCTCAAGCAATACTGGGCCGAGCT
GCATCCGCGCCTGGACGCCGATGACGACAACGACCCCACCGTACGTATCAATGCCCTCGCCGGCCTGACGTCCGATATCA
CCATTCGCCTGCTGCGCGAGAGCATCCTGGCCCGTTCGCGGACCTTCGGTGCCGTCAGCCTGCGCGCCGCCGCCAACGCC
AGCGGCCTGCAAAGTTTCCCGGATGAAAACCTCGGCGCCGAACAGCTCGCCGGGGCCCTGCTCGACAGCGACCCCGAGCA
GTTGGAAATCACCCGCGCCGCCCTGCTCGAAGCCCGCAGCGCCGCCGAAGCCATCGAACAACAGGTCAGTGACCAGGTCG
GTTCCGCCCAGGGCGTGGACCTTGGCCCGCTGAAGCAACCGCTGAAGATGGCCCTGCAGATTCTCGGCCAGTTCGCCCCG
CAGAGCGGCGACAGCGCCCTGTCCGATCCCGTCAGCGACGACAGCGCCGCGCCAACGGAATATGCCAGCGCGCCAAGCAC
GCCGCGCAACACCAGCACGAGCACCGTCAGCGGCGAAATCAACAACCGCGACGACGTGCTGCGCAGCCTGGACCGGATTC
TCGCTTACTACACCCGTCATGAGCCCTCCAGCCCGCTGCCGGTGCTGTTGAACCGGGCCAAGAATCTGGTGCACGCCGAC
TTCGCGGCCATCGTGCGCAACCTGATTCCCGACGGCATGAGTCAATTTGAAAACCTGCGCGGCCCAGACAGCGAATAA