Detailed information of component protein


Summary

Component ID T6CP008972
Component protein type TssL
T6SS ID (Type) T6SS00539 experimental (Type i4a)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (255 a.a.); Nucleotide sequence (765 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_RS42635
Coordinate (Strand) 2821041..2821805 (+)
NCBI ID WP_014337910.1
RefSeq NC_016830
Uniprot ID G8QBI2_PSEF3
KEGG ID pfe:PSF113_2420
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
DotU PF09850.11 4.6e-29 70..224
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-207 MPDGSGGAVRSLHEAPLSSAFRQAWLKWSQEWQDLPKDSDPAVLVNRVVEFSGRSAQRLWRVAFATVGDAATEQVKALVYAFVALVDETLLFSPWPGQLAWQQHPLESRMYASRQAGERLPAAIKKLLDEQMPGTRDLANVYLQCLILGFQGRLRGEPGQVQHAKWRVALFTFAWQHDPDYVDVSQRLALSSATPPVRMPVQQSLPD
Transmembrane helix 208-230 GFRLGLAILAMVLLLTGLGQVFW
Inside 231-254 RDIRSELEPVLQLNESAVVQEQDS


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 0.9923 - -


  Protein sequence: 255 a.a.    

>T6CP008972 NC_016830:2821041-2821805 [Pseudomonas fluorescens F113] [TssL]
MPDGSGGAVRSLHEAPLSSAFRQAWLKWSQEWQDLPKDSDPAVLVNRVVEFSGRSAQRLWRVAFATVGDAATEQVKALVY
AFVALVDETLLFSPWPGQLAWQQHPLESRMYASRQAGERLPAAIKKLLDEQMPGTRDLANVYLQCLILGFQGRLRGEPGQ
VQHAKWRVALFTFAWQHDPDYVDVSQRLALSSATPPVRMPVQQSLPDGFRLGLAILAMVLLLTGLGQVFWRDIRSELEPV
LQLNESAVVQEQDS*

  Nucleotide sequence: 765 bp    

>T6CP008972 NC_016830:2821041-2821805 [Pseudomonas fluorescens F113] [TssL]
ATGCCTGATGGAAGTGGCGGGGCGGTTCGGAGTCTGCATGAGGCGCCGCTGAGCAGCGCTTTTCGCCAGGCCTGGCTGAA
GTGGTCCCAGGAGTGGCAAGACTTGCCCAAGGACAGCGACCCTGCGGTATTGGTCAATCGGGTGGTGGAGTTCTCCGGGC
GCAGCGCCCAGCGTCTGTGGCGGGTGGCCTTCGCCACCGTCGGCGATGCCGCGACCGAGCAGGTCAAGGCGCTGGTCTAC
GCCTTCGTGGCGCTGGTGGACGAAACCTTGCTGTTCAGCCCCTGGCCCGGACAACTGGCGTGGCAGCAGCACCCCCTCGA
GTCACGCATGTATGCCAGCCGTCAGGCCGGCGAGCGCTTGCCGGCGGCGATCAAGAAACTGCTGGACGAGCAAATGCCCG
GCACCCGGGACCTGGCGAATGTCTACCTGCAATGCCTGATCCTCGGGTTCCAGGGGCGATTGCGTGGCGAGCCGGGCCAG
GTCCAGCATGCCAAGTGGCGCGTGGCGCTGTTCACTTTCGCCTGGCAACACGACCCCGATTACGTCGACGTCAGCCAGCG
CCTGGCGCTGTCTTCGGCGACGCCGCCAGTGCGCATGCCAGTGCAGCAATCGCTGCCGGACGGCTTTCGCCTGGGGTTGG
CGATCCTGGCGATGGTGTTGCTGCTGACTGGCTTGGGGCAGGTGTTCTGGCGTGACATCCGTTCGGAGCTCGAACCGGTG
CTGCAATTGAACGAGTCGGCGGTGGTTCAGGAGCAGGATTCATGA