Detailed information of component protein


Summary

Component ID T6CP005733
Component protein type TssC
T6SS ID (Type) T6SS00540 experimental (Type i3)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (499 a.a.); Nucleotide sequence (1497 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_RS59825
Coordinate (Strand) 6682680..6684176 (+)
NCBI ID WP_041476203.1
RefSeq NC_016830
Uniprot ID UPI00059BF8FC
KEGG ID -
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
VipB PF05943.14 1.2e-135 69..371
VipB_2 PF18945.2 3.9e-43 381..492
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-498 MTDNTAREGVQNLGATQETSEFASLLLQEFKPKTERAREAVETAVRTLAEQALAQTDLVSNDAIKSIESIIAAIDAKLTAQVNQVIHHPDFQQLESAWRGLHYLVNNTESDEQLKIRVLNVSKTDLHKTLKKFKGTAWDQSPIFKKMYEEEYGQFGGEPYGCLVGDYYFDQSPPDVELLGELSKVCAAMHSPFIAAASPTVMGMGSWQELSNPRDLTKIFTTPEYAGWRSLRESEDSRYIGLTMPRFLARLPYGAKTDPVEAFAFEENTDGADSSKYTWANAAYAMAVNINRSFKHFGWCSRIRGVESGGEVENLPAHTFPTDDGGVDMKCPTEIAISDRREAELAKNGFMPLLHKKNTDFAAFIGAQSLQKPAEYDDPDATANANLAARLPYLFATCRFAHYLKCIVRDKIGSFKEKDEMQRWLQDWILNYVDGDPAHSTETTKAQHPLAAAEVIVEEVEGNPGYYNSKFYLRPHYQLEGLTVSLRLVSKLPSAKGA


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 0.9850 - -


  Protein sequence: 499 a.a.    

>T6CP005733 NC_016830:6682680-6684176 [Pseudomonas fluorescens F113] [TssC]
MTDNTAREGVQNLGATQETSEFASLLLQEFKPKTERAREAVETAVRTLAEQALAQTDLVSNDAIKSIESIIAAIDAKLTA
QVNQVIHHPDFQQLESAWRGLHYLVNNTESDEQLKIRVLNVSKTDLHKTLKKFKGTAWDQSPIFKKMYEEEYGQFGGEPY
GCLVGDYYFDQSPPDVELLGELSKVCAAMHSPFIAAASPTVMGMGSWQELSNPRDLTKIFTTPEYAGWRSLRESEDSRYI
GLTMPRFLARLPYGAKTDPVEAFAFEENTDGADSSKYTWANAAYAMAVNINRSFKHFGWCSRIRGVESGGEVENLPAHTF
PTDDGGVDMKCPTEIAISDRREAELAKNGFMPLLHKKNTDFAAFIGAQSLQKPAEYDDPDATANANLAARLPYLFATCRF
AHYLKCIVRDKIGSFKEKDEMQRWLQDWILNYVDGDPAHSTETTKAQHPLAAAEVIVEEVEGNPGYYNSKFYLRPHYQLE
GLTVSLRLVSKLPSAKGA*

  Nucleotide sequence: 1497 bp    

>T6CP005733 NC_016830:6682680-6684176 [Pseudomonas fluorescens F113] [TssC]
ATGACTGACAATACCGCTCGCGAAGGCGTGCAAAACCTGGGTGCTACCCAAGAAACCAGCGAGTTCGCGTCCCTGCTGCT
GCAAGAATTCAAACCCAAGACCGAGCGCGCCCGCGAAGCCGTCGAAACGGCCGTACGCACCCTGGCCGAACAGGCCCTGG
CGCAGACCGACCTGGTGTCCAACGACGCCATCAAGTCGATCGAATCGATCATCGCCGCCATCGACGCCAAGCTCACCGCC
CAGGTCAACCAGGTCATCCACCACCCTGACTTCCAGCAACTGGAAAGCGCCTGGCGTGGCCTGCACTATCTGGTCAACAA
CACCGAGTCCGATGAGCAGCTCAAGATCCGTGTGCTCAACGTCTCCAAGACCGACCTGCACAAGACCCTGAAGAAATTCA
AGGGCACCGCGTGGGACCAGAGCCCGATCTTCAAGAAGATGTACGAAGAAGAATACGGCCAGTTCGGCGGCGAGCCTTAC
GGCTGCCTGGTTGGCGACTACTACTTCGACCAGTCGCCACCGGATGTCGAGCTGCTGGGCGAACTGTCGAAAGTCTGCGC
GGCCATGCACTCCCCGTTCATCGCTGCGGCATCGCCGACCGTGATGGGCATGGGCTCGTGGCAGGAACTGTCGAACCCGC
GCGACCTGACCAAGATCTTCACCACCCCGGAATACGCCGGCTGGCGTTCGTTGCGTGAATCGGAAGACTCGCGCTACATC
GGCCTGACCATGCCACGCTTCCTGGCGCGCCTGCCGTACGGCGCCAAGACCGACCCGGTGGAAGCCTTCGCCTTCGAAGA
AAACACCGACGGCGCCGACAGCTCCAAGTACACCTGGGCCAACGCCGCTTACGCGATGGCGGTGAACATCAACCGTTCGT
TCAAACACTTCGGTTGGTGCTCGCGCATCCGTGGCGTGGAGTCCGGCGGTGAAGTGGAAAACCTGCCAGCCCACACCTTC
CCGACCGACGACGGTGGCGTGGACATGAAGTGCCCGACCGAAATCGCCATCTCGGACCGCCGTGAAGCGGAACTGGCGAA
GAACGGTTTCATGCCGCTGCTGCACAAGAAAAACACCGACTTCGCCGCGTTCATCGGCGCCCAGTCGTTGCAGAAACCGG
CCGAATACGACGACCCGGACGCCACCGCCAACGCCAACCTGGCCGCGCGCCTGCCGTACCTGTTCGCCACTTGCCGTTTC
GCCCATTACCTCAAGTGCATCGTGCGCGACAAGATCGGTTCCTTCAAAGAGAAGGACGAGATGCAGCGCTGGTTGCAGGA
CTGGATCCTCAACTACGTCGACGGTGACCCGGCGCACTCCACCGAGACCACCAAGGCCCAGCACCCGTTGGCTGCAGCCG
AAGTGATCGTCGAAGAAGTCGAAGGCAACCCGGGGTACTACAACTCCAAGTTCTACCTGCGCCCGCACTACCAGCTCGAA
GGGCTGACCGTGTCGCTGCGCCTGGTATCGAAACTGCCGTCGGCCAAGGGCGCGTAA