Detailed information of component protein


Summary

Component ID T6CP005720
Component protein type TssF
T6SS ID (Type) T6SS00539 experimental (Type i4a)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (597 a.a.); Nucleotide sequence (1791 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_RS42600
Coordinate (Strand) 2813920..2815710 (-)
NCBI ID WP_014337903.1
RefSeq NC_016830
Uniprot ID G8QBH5_PSEF3
KEGG ID pfe:PSF113_2413
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS_TssF PF05947.14 3.5e-179 6..592
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-596 MSDSIDPHLLDYYQRELTWLRHAGSLFAERYPKVARRLELSPGECPDPHVERLLEGFALLAARLQRRLDDDYAEFSDALLEQLYPLAMRPLPSCAIVQFEPDPSKGNLNEGYPLPRDTPLFVTTDKGQSIHFRTTAAVHLWPVEISEALLLGSDEAQALTGVVRARSALRLELRCLGESQWSTLGIDSLRVHLAASPIINAGLYDLLGAHAIEVLAGAPGSVPEPLKGLPQIVGFASDQVLLPDEDGVHPGMRLLAEYFAFPDKFGFFDLPLAGATSDGPSLYLYIVFDRPPTSRLPLQASDIALGCTPVINLFPRTSEPLRPDGTRSEYRLVADSHRENSVEIHSIRGMRAMSSQGVRKVPAYYGSQHGSNQTCYWHARRVSGMSPNRLGTDLMVSLVDTQFDPLADTRDYSLTAELLCTNRHLAQSLPAGTPLGFERPGPVAWARLRNPPSPQSLPRLDGESRWRLVSQLTLNHLSLVEGPQALDALREILQLHNLRDEASAHRQIEGVSGLGCDRVIAHVGEDAWRGWRNGLEVRLQLDPQHFVGSSAVLFSGVLAQFFSLYATANRFVRTVLVQSDKEVKTWQPQAGKPLVL


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 0.9958 - -


  Protein sequence: 597 a.a.    

>T6CP005720 NC_016830:c2815710-2813920 [Pseudomonas fluorescens F113] [TssF]
MSDSIDPHLLDYYQRELTWLRHAGSLFAERYPKVARRLELSPGECPDPHVERLLEGFALLAARLQRRLDDDYAEFSDALL
EQLYPLAMRPLPSCAIVQFEPDPSKGNLNEGYPLPRDTPLFVTTDKGQSIHFRTTAAVHLWPVEISEALLLGSDEAQALT
GVVRARSALRLELRCLGESQWSTLGIDSLRVHLAASPIINAGLYDLLGAHAIEVLAGAPGSVPEPLKGLPQIVGFASDQV
LLPDEDGVHPGMRLLAEYFAFPDKFGFFDLPLAGATSDGPSLYLYIVFDRPPTSRLPLQASDIALGCTPVINLFPRTSEP
LRPDGTRSEYRLVADSHRENSVEIHSIRGMRAMSSQGVRKVPAYYGSQHGSNQTCYWHARRVSGMSPNRLGTDLMVSLVD
TQFDPLADTRDYSLTAELLCTNRHLAQSLPAGTPLGFERPGPVAWARLRNPPSPQSLPRLDGESRWRLVSQLTLNHLSLV
EGPQALDALREILQLHNLRDEASAHRQIEGVSGLGCDRVIAHVGEDAWRGWRNGLEVRLQLDPQHFVGSSAVLFSGVLAQ
FFSLYATANRFVRTVLVQSDKEVKTWQPQAGKPLVL*

  Nucleotide sequence: 1791 bp    

>T6CP005720 NC_016830:c2815710-2813920 [Pseudomonas fluorescens F113] [TssF]
ATGAGCGACTCGATTGACCCGCACCTGTTGGACTATTACCAACGCGAACTGACCTGGTTGCGGCATGCCGGGAGTCTGTT
CGCCGAGCGCTACCCCAAGGTCGCCCGGCGCCTGGAGTTGTCCCCCGGCGAGTGCCCCGACCCGCATGTCGAGCGCCTGC
TCGAAGGTTTCGCGCTGTTGGCCGCCCGCTTGCAACGACGGCTGGACGACGACTATGCCGAGTTCAGCGATGCCCTGCTC
GAACAGCTTTACCCGTTGGCCATGCGGCCCTTGCCGTCGTGTGCCATCGTGCAGTTCGAACCCGACCCCAGCAAAGGCAA
CTTGAACGAGGGCTACCCGCTGCCCCGCGACACACCGTTGTTCGTCACCACGGACAAAGGCCAGAGCATTCATTTTCGGA
CCACCGCCGCCGTGCATTTGTGGCCGGTGGAAATCAGCGAGGCATTGCTGCTGGGCAGCGACGAAGCCCAGGCGCTGACC
GGAGTGGTCCGGGCACGCTCGGCCTTGCGCCTGGAGCTGCGGTGCCTGGGCGAAAGCCAGTGGTCGACGCTGGGAATCGA
CTCGCTGCGGGTACACCTGGCGGCGTCACCGATCATCAACGCCGGGCTGTACGACCTGCTGGGCGCGCACGCCATCGAGG
TCTTGGCCGGTGCGCCGGGCAGCGTGCCGGAGCCACTGAAGGGCTTGCCACAGATCGTCGGCTTCGCCAGTGACCAGGTC
CTGCTGCCAGACGAAGACGGTGTGCACCCCGGCATGCGCCTGCTGGCCGAGTACTTTGCCTTCCCGGACAAATTCGGCTT
CTTCGATCTGCCACTGGCCGGCGCCACCAGCGACGGTCCGTCGTTGTACCTGTACATCGTTTTCGACCGCCCTCCCACCA
GCCGCCTGCCGCTCCAGGCCAGCGACATCGCCCTGGGCTGCACGCCGGTGATCAATCTGTTTCCCAGGACTTCCGAGCCG
CTGCGCCCGGATGGCACCCGCAGCGAGTACCGGTTGGTGGCCGACAGTCATCGGGAAAACAGCGTCGAGATCCACAGCAT
CCGTGGCATGCGCGCCATGTCCAGCCAGGGCGTGCGCAAAGTGCCGGCCTATTACGGCAGCCAGCATGGCAGCAACCAAA
CCTGTTATTGGCATGCACGACGGGTCAGTGGAATGAGCCCGAACCGACTGGGCACCGACTTGATGGTCAGCCTGGTGGAC
ACCCAGTTCGACCCGCTGGCCGACACCCGCGACTACAGCCTCACCGCCGAACTGCTGTGCACCAACCGTCATCTGGCCCA
GAGCCTGCCGGCCGGCACGCCGCTGGGTTTCGAACGTCCGGGGCCGGTGGCCTGGGCACGCCTGCGCAACCCACCCAGCC
CGCAAAGCCTGCCGCGCCTGGACGGCGAATCGCGCTGGCGGCTGGTGTCGCAATTGACCCTCAACCATTTGTCGCTGGTC
GAAGGCCCCCAGGCGTTGGACGCATTGCGCGAGATTCTCCAATTGCACAACCTGCGGGACGAGGCCAGCGCCCATCGCCA
GATCGAAGGGGTATCGGGACTGGGCTGCGACCGGGTCATCGCCCATGTCGGTGAAGACGCCTGGCGCGGCTGGCGAAATG
GGTTGGAGGTGCGCCTGCAACTGGACCCGCAACACTTTGTCGGCAGCAGCGCCGTGCTGTTCTCCGGGGTGCTGGCGCAA
TTCTTTTCCCTTTATGCCACCGCCAATCGCTTCGTGCGCACCGTGCTGGTCCAGTCCGACAAGGAGGTGAAGACATGGCA
ACCCCAAGCCGGCAAACCCCTGGTGCTCTGA