Detailed information of component protein


Summary

Component ID T6CP005721
Component protein type TssD
T6SS ID (Type) T6SS00539 experimental (Type i4a)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (166 a.a.); Nucleotide sequence (498 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_RS42610
Coordinate (Strand) 2816151..2816648 (-)
NCBI ID WP_014337905.1
RefSeq NC_016830
Uniprot ID G8QBH7_PSEF3, A0A1K1PGW8_9PSED, A0A1H6WL19_9PSED, A0A2T0YTM0_9PSED, A0A1G4UXG3_9PSED, A0A6I6Q747_9PSED, A0A560PTX3_9PSED, A0A159ZRG1_PSEFL
KEGG ID pfe:PSF113_2415
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS_HCP PF05638.14 1.1e-29 8..138
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-165 MDAIILDLGGDIKGDSLLEGFTDKIEVMSYSHNVAMQVTNDVSNSERTSGRPHIGEFTLTKFIDSSTPSLNEYCCAGKPIPQAVITIGRNAAEGSGQIMPFIVYTLTNVVLSNVSVSGGTGGKPVETLSLNFTKIKWELTAQKDDGTKEGTAGTTWDLAANKMTK


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 0.9902 - -


  Protein sequence: 166 a.a.    

>T6CP005721 NC_016830:c2816648-2816151 [Pseudomonas fluorescens F113] [TssD]
MDAIILDLGGDIKGDSLLEGFTDKIEVMSYSHNVAMQVTNDVSNSERTSGRPHIGEFTLTKFIDSSTPSLNEYCCAGKPI
PQAVITIGRNAAEGSGQIMPFIVYTLTNVVLSNVSVSGGTGGKPVETLSLNFTKIKWELTAQKDDGTKEGTAGTTWDLAA
NKMTK*

  Nucleotide sequence: 498 bp    

>T6CP005721 NC_016830:c2816648-2816151 [Pseudomonas fluorescens F113] [TssD]
ATGGATGCAATCATTCTCGACCTCGGCGGCGACATCAAGGGCGACAGCCTGCTGGAGGGTTTCACGGACAAGATCGAGGT
CATGTCCTACAGTCACAACGTGGCGATGCAGGTCACCAACGACGTCAGCAACTCGGAGCGTACCTCCGGCCGGCCGCACA
TCGGCGAATTCACCCTGACTAAATTCATCGACAGTTCCACCCCTTCGCTCAATGAGTATTGCTGCGCCGGCAAGCCGATC
CCGCAAGCCGTCATCACCATCGGCCGCAACGCCGCCGAGGGCAGCGGCCAGATCATGCCGTTCATCGTCTACACCCTGAC
CAACGTCGTGCTGTCCAACGTCAGTGTCAGCGGCGGCACCGGCGGCAAACCGGTGGAAACCCTGTCGCTGAACTTCACCA
AGATCAAATGGGAGCTCACCGCGCAGAAAGACGACGGCACCAAGGAAGGCACGGCGGGTACGACCTGGGACCTGGCCGCC
AACAAAATGACCAAGTAA