Detailed information of component protein


Summary

Component ID T6CP005717
Component protein type TssI
T6SS ID (Type) T6SS00539 experimental (Type i4a)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (670 a.a.); Nucleotide sequence (2010 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_RS42580
Coordinate (Strand) 2807673..2809682 (-)
NCBI ID WP_014337899.1
RefSeq NC_016830
Uniprot ID G8QBH1_PSEF3
KEGG ID pfe:PSF113_2409
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
Phage_GPD PF05954.13 1.4e-78 30..323
Phage_base_V PF04717.14 3.5e-16 369..436
Gp5_C PF06715.14 2e-06 561..584
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-669 MPRSTDSNTTLSLTATSLSALYPESLSGEERLNALGSHILNGINDGASLDLTTAVASHVTTTLHKDALLRPLDWLVAEIRQLPADATAERYQLLLRPWLWWLSLASNNRVFQNLATSDIVTTIFKGHGFTDFQLKLSGSYTPREYCVQYGETDLAFVSRLMEEDGIFWFFTHEAGTHTLLLADSNDAFAPIPNGPTVNYLGQKMGERELHGIRSGQVCLQAVAGVYQATDYAFTTPTTSLYSQAEAVAGPSSVYEHPGSYTAKAQGDALTKQRVDGLRSQEKRFVGESDCRWLVPGYWFTLAGHEDSTLNIDWVVTAVSHEASHDSYRNRFEAIPKATVYRPARLTPKPRMHTQTALVVGKAGEEIWTDEYGRIKLQFPWDRTGKNDETSSCWVRVVLPWSGKGFGMQFVPRIGQEVIVTFIDGDPDRPLVTGCVYNGDNALPYALPANQTQSGIKTNSSKGGGGFNELRFEDKKDAEEVFLQAQKDFNINVLNDTTATVGHDETLTVQNARTRTVKDGDETVTLEKGKRSVAIQTGSDSLDVKDTRTVTVGSDQNHSTGGNYDHKVTGNYSLTVDGNLTIKVSGTLTLQSGGSFAIKSGADLAAQASTSISQKAGTALSNQAGTSLENKAGTTLTNDAGISLVNKAAAEQTVDGGGMLTIKGGLVKVN


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 0.8877 - -


  Protein sequence: 670 a.a.    

>T6CP005717 NC_016830:c2809682-2807673 [Pseudomonas fluorescens F113] [TssI]
MPRSTDSNTTLSLTATSLSALYPESLSGEERLNALGSHILNGINDGASLDLTTAVASHVTTTLHKDALLRPLDWLVAEIR
QLPADATAERYQLLLRPWLWWLSLASNNRVFQNLATSDIVTTIFKGHGFTDFQLKLSGSYTPREYCVQYGETDLAFVSRL
MEEDGIFWFFTHEAGTHTLLLADSNDAFAPIPNGPTVNYLGQKMGERELHGIRSGQVCLQAVAGVYQATDYAFTTPTTSL
YSQAEAVAGPSSVYEHPGSYTAKAQGDALTKQRVDGLRSQEKRFVGESDCRWLVPGYWFTLAGHEDSTLNIDWVVTAVSH
EASHDSYRNRFEAIPKATVYRPARLTPKPRMHTQTALVVGKAGEEIWTDEYGRIKLQFPWDRTGKNDETSSCWVRVVLPW
SGKGFGMQFVPRIGQEVIVTFIDGDPDRPLVTGCVYNGDNALPYALPANQTQSGIKTNSSKGGGGFNELRFEDKKDAEEV
FLQAQKDFNINVLNDTTATVGHDETLTVQNARTRTVKDGDETVTLEKGKRSVAIQTGSDSLDVKDTRTVTVGSDQNHSTG
GNYDHKVTGNYSLTVDGNLTIKVSGTLTLQSGGSFAIKSGADLAAQASTSISQKAGTALSNQAGTSLENKAGTTLTNDAG
ISLVNKAAAEQTVDGGGMLTIKGGLVKVN*

  Nucleotide sequence: 2010 bp    

>T6CP005717 NC_016830:c2809682-2807673 [Pseudomonas fluorescens F113] [TssI]
ATGCCCCGCTCCACCGACAGCAACACCACGCTATCACTCACCGCCACCTCGCTGTCGGCGCTGTACCCTGAATCGCTGTC
CGGCGAAGAACGCCTCAACGCCCTGGGTTCGCACATCCTCAACGGCATCAACGACGGCGCCTCGCTGGACCTCACGACAG
CCGTCGCCAGCCACGTGACCACCACGCTGCACAAGGACGCCTTGCTGCGTCCGCTGGACTGGCTGGTGGCCGAGATCCGC
CAGCTTCCTGCCGACGCCACCGCCGAGCGCTATCAGCTTTTACTCCGGCCCTGGCTCTGGTGGCTGAGCCTGGCCAGCAA
CAACCGTGTGTTCCAGAACCTTGCCACCTCGGACATCGTTACCACGATTTTCAAGGGCCACGGTTTCACCGACTTCCAGC
TCAAGCTCAGCGGCAGCTACACCCCGCGCGAGTACTGCGTGCAGTACGGCGAAACCGACCTGGCCTTCGTCTCGCGCCTG
ATGGAAGAGGACGGAATTTTCTGGTTCTTCACCCATGAAGCAGGCACGCACACCCTGTTACTGGCCGACAGCAACGATGC
CTTCGCGCCCATCCCCAACGGGCCGACGGTGAATTATCTCGGGCAGAAAATGGGTGAGCGTGAACTGCACGGTATCCGTT
CGGGGCAAGTGTGCCTGCAAGCGGTGGCCGGGGTTTACCAGGCGACCGATTATGCGTTCACCACACCGACAACATCACTC
TACAGCCAGGCCGAAGCCGTGGCCGGGCCAAGCTCGGTGTACGAACATCCAGGCAGCTATACCGCCAAGGCCCAGGGCGA
TGCGCTGACCAAACAGCGGGTGGATGGCCTGCGCAGCCAGGAGAAACGCTTCGTTGGCGAAAGCGACTGCCGCTGGCTGG
TGCCAGGGTATTGGTTCACCCTCGCCGGCCATGAAGACTCGACGCTGAATATCGATTGGGTCGTGACGGCGGTCAGCCAT
GAAGCCAGTCACGACAGCTATCGCAACCGCTTCGAAGCGATCCCCAAGGCCACGGTCTATCGACCGGCCCGCCTCACGCC
AAAACCCCGCATGCACACCCAGACGGCGCTGGTGGTGGGCAAGGCCGGCGAAGAAATCTGGACCGACGAATACGGCCGGA
TCAAATTGCAGTTCCCCTGGGACCGTACCGGCAAGAACGACGAGACCTCATCGTGCTGGGTCCGCGTGGTCTTGCCCTGG
AGCGGCAAAGGCTTTGGCATGCAGTTCGTGCCGCGCATCGGCCAGGAAGTCATCGTGACCTTCATCGACGGCGACCCGGA
CCGTCCCTTGGTCACCGGCTGCGTCTACAACGGCGACAACGCCCTGCCCTATGCGCTGCCGGCGAACCAGACCCAGTCCG
GGATCAAGACCAATTCGTCCAAGGGCGGTGGTGGTTTCAACGAGTTGCGCTTCGAAGACAAGAAGGACGCCGAAGAGGTG
TTTCTCCAGGCTCAGAAAGACTTCAACATCAACGTGCTCAACGACACCACCGCCACCGTCGGCCACGACGAAACCCTCAC
GGTGCAGAACGCCCGCACCCGCACGGTAAAGGACGGCGACGAAACCGTGACCCTGGAGAAAGGCAAGCGCAGCGTGGCCA
TCCAGACCGGCAGCGACAGCCTCGATGTGAAGGACACCCGCACCGTCACCGTGGGCTCGGACCAGAACCACAGCACCGGC
GGCAACTATGACCACAAGGTCACCGGCAACTACAGCCTGACGGTGGACGGCAACCTGACCATCAAGGTCAGCGGCACCCT
GACCCTGCAAAGTGGCGGCAGCTTCGCGATCAAGAGCGGCGCAGACCTGGCCGCCCAGGCCAGCACGTCCATCAGCCAGA
AAGCCGGCACGGCCCTGAGCAATCAGGCCGGTACGTCGCTGGAAAACAAGGCCGGTACCACCCTGACCAACGACGCCGGT
ATCAGCCTGGTAAACAAGGCGGCGGCCGAACAGACCGTGGACGGCGGCGGCATGCTGACCATCAAGGGCGGCCTGGTGAA
GGTCAACTGA