Detailed information of component protein


Summary

Component ID T6CP005726
Component protein type TssA
T6SS ID (Type) T6SS00539 experimental (Type i4a)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (361 a.a.); Nucleotide sequence (1083 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_RS42645
Coordinate (Strand) 2825623..2826705 (+)
NCBI ID WP_014337912.1
RefSeq NC_016830
Uniprot ID G8QBI4_PSEO1
KEGG ID pfe:PSF113_2422
PDB ID -

Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
ImpA_N PF06812.14 1e-34 16..138

Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-360 VSLPISPLPELVSQLLEPISAESPCGPDLRYEPEYDQLRELRREDDTSLPTGVWQSSVKRALWPDLERLATTLLLERSKDLMISAWLGEAWLHMAGLEGLPGSLALVAGLCERYPEQLHPQAEEGDQSWRVIPLEWLARRYSEVLLTRVPLFDGREQAFAAFCLDDWQRLQRQQVLVNDSKNAKASAEAARSDQKKLSELIRNTPLSFWLHRQGSLMLSLQHLQRLEAWSDAYLGNLAPGYKSLQDVMQALLALVEEFIAMHPQQPTVAPVQTSPATTTSTPQPQAAPAQVFQEPANREEAYRQLLVIAGYLARTEPHSPVPYLIRRGVEWGNKPLSELLGELISADAESRRLWTLLGVL



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
Other 0.9145 - -



  Protein sequence: 361 a.a.    

>T6CP005726 NC_016830:2825623-2826705 [Pseudomonas fluorescens F113] [TssA]
VSLPISPLPELVSQLLEPISAESPCGPDLRYEPEYDQLRELRREDDTSLPTGVWQSSVKRALWPDLERLATTLLLERSKD
LMISAWLGEAWLHMAGLEGLPGSLALVAGLCERYPEQLHPQAEEGDQSWRVIPLEWLARRYSEVLLTRVPLFDGREQAFA
AFCLDDWQRLQRQQVLVNDSKNAKASAEAARSDQKKLSELIRNTPLSFWLHRQGSLMLSLQHLQRLEAWSDAYLGNLAPG
YKSLQDVMQALLALVEEFIAMHPQQPTVAPVQTSPATTTSTPQPQAAPAQVFQEPANREEAYRQLLVIAGYLARTEPHSP
VPYLIRRGVEWGNKPLSELLGELISADAESRRLWTLLGVL*

  Nucleotide sequence: 1083 bp    

>T6CP005726 NC_016830:2825623-2826705 [Pseudomonas fluorescens F113] [TssA]
GTGAGCTTGCCGATATCGCCTTTGCCTGAGCTGGTCAGCCAATTGCTCGAGCCGATCAGCGCCGAATCGCCCTGTGGCCC
GGACCTGCGCTACGAACCGGAATATGACCAGTTGCGCGAATTGCGCCGGGAGGACGACACCAGCCTGCCCACTGGTGTGT
GGCAGTCTTCTGTCAAGCGCGCCCTGTGGCCAGACCTGGAACGGCTCGCGACCACGTTGCTGCTTGAGCGCAGCAAGGAC
CTGATGATCAGCGCCTGGCTGGGGGAGGCCTGGCTGCATATGGCCGGGCTGGAAGGGTTGCCGGGCAGTCTGGCGTTGGT
GGCAGGGCTGTGTGAGCGCTATCCGGAGCAGTTGCACCCCCAGGCCGAGGAAGGCGACCAGTCATGGCGGGTGATCCCCC
TGGAGTGGTTGGCCCGTCGCTACAGCGAAGTGCTGCTGACGCGGGTGCCGTTGTTCGACGGCCGGGAACAGGCCTTCGCC
GCTTTCTGCCTGGACGACTGGCAACGCTTGCAGCGCCAGCAAGTGTTGGTCAACGACAGCAAGAACGCCAAGGCCTCGGC
CGAAGCGGCGCGCAGCGATCAAAAGAAGCTCAGCGAACTGATTCGCAACACACCCTTGTCGTTCTGGTTGCATCGCCAGG
GCAGTCTGATGTTGAGTCTGCAACACCTGCAACGGCTCGAAGCTTGGAGCGACGCTTACCTGGGCAACCTGGCCCCGGGC
TACAAATCCCTGCAGGACGTGATGCAGGCCTTGCTGGCACTGGTAGAGGAGTTCATCGCGATGCACCCACAGCAACCCAC
CGTCGCGCCGGTGCAAACGTCCCCGGCGACCACGACGTCGACGCCCCAGCCGCAGGCAGCACCTGCCCAGGTCTTCCAGG
AACCGGCCAATCGTGAAGAGGCCTACCGACAGCTACTGGTCATCGCCGGTTACCTGGCCCGTACCGAACCCCACAGCCCG
GTGCCCTACCTGATCCGGCGCGGTGTGGAGTGGGGCAACAAGCCGTTGAGCGAGTTGTTGGGTGAGCTGATCAGTGCCGA
TGCCGAATCCCGGCGCTTGTGGACGTTATTGGGCGTTCTCTAA