Detailed information of component protein


Summary

Component ID T6CP005722
Component protein type TssC
T6SS ID (Type) T6SS00539 experimental (Type i4a)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (494 a.a.); Nucleotide sequence (1482 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_RS42615
Coordinate (Strand) 2816880..2818361 (-)
NCBI ID WP_014337906.1
RefSeq NC_016830
Uniprot ID G8QBH8_PSEF3, A0A0F4XM88_9PSED, A0A0Q6YL26_9PSED
KEGG ID pfe:PSF113_2416
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
VipB PF05943.14 7.4e-138 67..367
VipB_2 PF18945.2 1.1e-45 376..487
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-493 MPASSSAQTSESTTQTLSLLDKIIAEGRMAHDDSQQDYARDMLAEFATQVLDEGMAIDKDTVAMINDRISQIDQLISAQLNEVLHHPDLQKLEASWRGLHLLVQNTETSTRLKLRLLNVTQKELQNDLEKAVEFDQSALFKKIYEEEYGTFGGHPFSLLVGDYTFGRHPQDIGLLEKLSNVAAAAHAPFIAAASPRLFDMTSFTELAIPRDLSKIFESQELIKWRAFRESEDSRYVSLVLPHFLLRLPYGPDTLPVEGINYVEDVNGTDHSKYLWGNAAWTLAQRITEAFAKYGWCAAIRGAEGGGAVEGLPAHTFRTSSGDLSLKCPTEVAITDRREKELNDLGFISLCHKKNSDVAVFFGGQTTNKAKLYNTNEANANARISAMLPYVLAASRFAHYLKVIMRDKVGSFMTRDNVQTYLNNWIADYVLINDNAPQEIKAQYPLREARVDVTEVAGKPGAYKATVFLRPHFQLEELTASIRLVATLPPPVAA


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 0.9405 - -


  Protein sequence: 494 a.a.    

>T6CP005722 NC_016830:c2818361-2816880 [Pseudomonas fluorescens F113] [TssC]
MPASSSAQTSESTTQTLSLLDKIIAEGRMAHDDSQQDYARDMLAEFATQVLDEGMAIDKDTVAMINDRISQIDQLISAQL
NEVLHHPDLQKLEASWRGLHLLVQNTETSTRLKLRLLNVTQKELQNDLEKAVEFDQSALFKKIYEEEYGTFGGHPFSLLV
GDYTFGRHPQDIGLLEKLSNVAAAAHAPFIAAASPRLFDMTSFTELAIPRDLSKIFESQELIKWRAFRESEDSRYVSLVL
PHFLLRLPYGPDTLPVEGINYVEDVNGTDHSKYLWGNAAWTLAQRITEAFAKYGWCAAIRGAEGGGAVEGLPAHTFRTSS
GDLSLKCPTEVAITDRREKELNDLGFISLCHKKNSDVAVFFGGQTTNKAKLYNTNEANANARISAMLPYVLAASRFAHYL
KVIMRDKVGSFMTRDNVQTYLNNWIADYVLINDNAPQEIKAQYPLREARVDVTEVAGKPGAYKATVFLRPHFQLEELTAS
IRLVATLPPPVAA*

  Nucleotide sequence: 1482 bp    

>T6CP005722 NC_016830:c2818361-2816880 [Pseudomonas fluorescens F113] [TssC]
ATGCCTGCTTCATCCAGCGCTCAAACCAGCGAGAGCACGACCCAGACCCTGTCCCTGCTGGACAAGATCATCGCCGAGGG
CCGCATGGCCCACGACGACAGCCAGCAAGATTACGCCCGCGACATGCTGGCCGAATTCGCCACCCAGGTCCTCGACGAAG
GCATGGCCATCGACAAGGACACCGTGGCGATGATCAACGACCGCATCAGCCAGATCGATCAGCTGATCAGCGCCCAGCTC
AACGAAGTGCTGCACCATCCCGACCTGCAGAAACTCGAAGCCTCCTGGCGCGGCCTGCACCTGCTGGTGCAGAACACCGA
AACCAGCACCCGGCTCAAATTGCGCCTGCTCAACGTCACCCAGAAAGAACTGCAGAACGATCTGGAAAAAGCCGTCGAAT
TCGACCAGAGCGCGCTGTTCAAGAAGATCTACGAGGAAGAATACGGCACCTTCGGCGGCCACCCGTTCAGCCTGCTGGTG
GGTGACTACACCTTTGGCCGGCATCCGCAGGACATCGGCCTGCTGGAAAAACTCTCAAACGTCGCCGCCGCCGCGCACGC
GCCTTTCATTGCCGCCGCCAGCCCGCGGTTGTTCGACATGACCAGCTTCACCGAACTGGCGATACCCAGGGATCTGTCGA
AGATTTTCGAGAGCCAGGAGTTGATCAAGTGGCGCGCCTTCCGTGAAAGCGAAGACTCGCGCTACGTGTCCCTGGTGCTG
CCGCACTTCCTGCTGCGCCTGCCGTACGGCCCGGACACGCTGCCGGTGGAAGGCATCAACTACGTCGAAGACGTCAACGG
CACCGACCACAGCAAATACCTGTGGGGCAACGCCGCCTGGACCCTGGCGCAACGCATCACCGAAGCCTTTGCCAAATATG
GCTGGTGCGCAGCCATTCGCGGGGCCGAGGGCGGTGGCGCGGTCGAAGGCCTGCCGGCCCATACGTTCCGCACCAGCTCC
GGAGACCTGTCGCTCAAATGCCCGACCGAAGTGGCGATCACCGACCGCCGCGAAAAAGAACTCAACGACCTGGGCTTCAT
CTCCCTGTGCCACAAGAAAAACAGCGACGTGGCGGTGTTCTTCGGCGGCCAGACCACCAACAAGGCCAAGCTCTACAACA
CCAACGAGGCCAACGCCAACGCGCGGATCTCGGCAATGTTGCCGTACGTGCTGGCGGCCTCGCGTTTCGCCCATTACCTG
AAGGTGATCATGCGTGACAAGGTCGGCAGTTTCATGACCCGCGACAACGTGCAGACCTACCTCAACAACTGGATCGCCGA
CTACGTGCTGATCAACGATAACGCGCCGCAAGAGATCAAGGCGCAGTACCCGTTGCGCGAAGCACGGGTGGACGTGACGG
AAGTGGCCGGCAAGCCAGGCGCCTACAAGGCCACGGTGTTCCTGCGGCCGCACTTCCAACTGGAGGAGTTGACCGCCTCG
ATCCGCCTGGTGGCGACCCTGCCGCCGCCGGTAGCTGCCTGA