Detailed information of component protein


Summary

Component ID T6CP005728
Component protein type TssL
T6SS ID (Type) T6SS00540 experimental (Type i3)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (437 a.a.); Nucleotide sequence (1311 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_RS59795
Coordinate (Strand) 6675883..6677193 (-)
NCBI ID WP_014340881.1
RefSeq NC_016830
Uniprot ID G8Q711_PSEF3
KEGG ID pfe:PSF113_5793
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
DotU PF09850.11 3.8e-67 54..256
OmpA PF00691.22 1.9e-15 326..424
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Inside 1-229 MSNDDRTQFMPTPGGRGGDPFRPDAGRPQPTPAPAPLSMPAAPVLTGKAEGLNPLESAAGPLLALLTRLRNTIAHPAPASLRAQLLAYLRQFEERAEAAGVVRNDVLLARYALCTALDEAVLSTPWGGTSDWGKQSLLITVHNEAWGGEKVFQLLEHCLQSPRERLYLLELLYLCMCLGFEGRYRVMNDGRSQLEVLRERTAAVIRSARGDYERELSPHWRGVTVARDR
Transmembrane helix 230-252 LAQFMPPWIAVAIGAALLLALLF
Outside 253-436 GLRMKLASDAEPVFKNIHFLGEIPVQTIDRPVVQPKVIERPRLAGFLADEIRANRIAVEDAVDRSVVTIRGDELFASGSASIKDDFQPLMLRIADAVRKVKGQVLVTGHSDNRPIATLRFPSNWALSEARAQSVLQILSAKTGQPERFSAEGRSDTEPLASNATTEGRARNRRVEITVLAEGVE


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 0.8730 - -


  Protein sequence: 437 a.a.    

>T6CP005728 NC_016830:c6677193-6675883 [Pseudomonas fluorescens F113] [TssL]
MSNDDRTQFMPTPGGRGGDPFRPDAGRPQPTPAPAPLSMPAAPVLTGKAEGLNPLESAAGPLLALLTRLRNTIAHPAPAS
LRAQLLAYLRQFEERAEAAGVVRNDVLLARYALCTALDEAVLSTPWGGTSDWGKQSLLITVHNEAWGGEKVFQLLEHCLQ
SPRERLYLLELLYLCMCLGFEGRYRVMNDGRSQLEVLRERTAAVIRSARGDYERELSPHWRGVTVARDRLAQFMPPWIAV
AIGAALLLALLFGLRMKLASDAEPVFKNIHFLGEIPVQTIDRPVVQPKVIERPRLAGFLADEIRANRIAVEDAVDRSVVT
IRGDELFASGSASIKDDFQPLMLRIADAVRKVKGQVLVTGHSDNRPIATLRFPSNWALSEARAQSVLQILSAKTGQPERF
SAEGRSDTEPLASNATTEGRARNRRVEITVLAEGVE*

  Nucleotide sequence: 1311 bp    

>T6CP005728 NC_016830:c6677193-6675883 [Pseudomonas fluorescens F113] [TssL]
ATGAGTAACGACGATCGTACCCAGTTCATGCCGACGCCCGGTGGCCGTGGTGGAGATCCCTTCCGCCCGGACGCTGGCCG
GCCACAGCCGACGCCTGCGCCTGCACCGCTGTCGATGCCGGCCGCGCCGGTGCTGACCGGCAAGGCCGAGGGCCTCAACC
CGCTGGAAAGCGCCGCCGGCCCACTGCTGGCCCTGCTGACGCGCCTGCGCAACACCATTGCCCACCCGGCGCCGGCCAGT
CTGCGCGCACAACTGCTGGCCTACCTGCGCCAGTTCGAAGAGCGCGCCGAGGCCGCCGGCGTGGTGCGCAACGATGTATT
GCTGGCCCGCTACGCCTTGTGCACCGCGCTGGACGAAGCGGTGTTGAGCACCCCGTGGGGCGGCACCAGCGATTGGGGCA
AGCAAAGCCTGTTGATCACCGTGCACAACGAAGCCTGGGGCGGCGAGAAGGTGTTCCAGCTGCTGGAGCATTGCCTGCAA
AGCCCGCGCGAGCGCCTGTATCTGCTGGAGCTTTTGTACCTGTGCATGTGCCTGGGTTTCGAAGGGCGCTACCGGGTGAT
GAACGACGGTCGCAGCCAACTGGAAGTGTTGCGTGAGCGCACCGCCGCCGTCATCCGCAGTGCCCGTGGCGATTACGAGC
GCGAGCTGTCGCCGCACTGGCGCGGTGTCACTGTGGCCCGTGATCGACTGGCGCAATTCATGCCGCCGTGGATCGCCGTG
GCCATCGGTGCAGCCCTGTTGCTGGCGCTGCTGTTCGGCCTGCGCATGAAACTGGCCTCCGATGCCGAGCCGGTGTTCAA
GAACATTCATTTCCTTGGTGAAATCCCGGTGCAGACCATCGACCGTCCTGTGGTGCAGCCCAAAGTGATCGAGCGCCCAC
GCCTGGCCGGCTTCCTCGCCGATGAAATCCGCGCCAACCGCATTGCCGTGGAAGACGCCGTCGACCGCTCGGTGGTGACC
ATCCGCGGCGATGAACTGTTCGCCTCGGGCAGCGCCAGCATCAAGGACGATTTCCAGCCGCTGATGCTGCGCATCGCCGA
TGCGGTGCGCAAGGTCAAGGGCCAGGTCCTGGTCACCGGGCACAGCGACAATCGCCCGATCGCCACCCTCCGGTTCCCGT
CCAACTGGGCGTTGTCCGAAGCGCGGGCGCAATCGGTGCTGCAAATTCTCTCGGCCAAGACTGGCCAGCCCGAGCGCTTC
AGCGCCGAAGGCCGCAGCGACACCGAGCCGTTGGCATCCAACGCCACCACAGAGGGGCGTGCGCGCAACCGTCGGGTTGA
AATCACAGTATTGGCGGAGGGGGTCGAGTGA