Detailed information of component protein


Summary

Component ID T6CP005727
Component protein type TssM
T6SS ID (Type) T6SS00540 experimental (Type i3)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (1167 a.a.); Nucleotide sequence (3501 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] DurĂ¡n 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_RS59790
Coordinate (Strand) 6672386..6675886 (-)
NCBI ID WP_014340880.1
RefSeq NC_016830
Uniprot ID G8Q710_PSEO1
KEGG ID pfe:PSF113_5792
PDB ID -

Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
IcmF-related_N PF14331.8 9.2e-97 191..447
IcmF-related PF06761.14 7.6e-82 500..792
IcmF_C PF06744.14 3.1e-29 1041..1147

Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Inside 1-6 VKAFFS
Transmembrane helix 7-29 FMTRWVIPLLGLIALSLIIWFVG
Outside 30-38 PLLDWLVPE
Transmembrane helix 39-58 GRRWALIILVFAVWIAYRVL
Inside 59-439 RIIQARRQAAEVMRSLAAQTPPDPTSIATAEELETLRQRMDEALALLKKAKLGGDERRNLYELPWYVIIGPPGSGKTTALVNSGLHFPLAAQLGAGAVRGVGGTRNCDWWFTDQAVLLDTAGRYTTQDSDATIDKAAWLGFLGLLKKQRARRPIDGAFIAISLSDLLLGSDAERAAHAAAIRLRIQELYTQLGVRFPIYLMLTKLDLVPGFMEYFDTLSKEERAQVWGMTFALDDGKSSDSPLAHLQSEFTGLEQRLNDRLVERLQQERDPARRDLIYGFPQQFGALKDCLQSFLEGVFKPNAFEERVLLRGVYFTSGTQEGSPIDRLIGSMAQSMNLDRQHLARQTGTGRSYFIEKLFTAVAFAERGLVGVDPKVERRRK
Transmembrane helix 440-462 WIARGVLASTVVLVLVVSTLWWV
Outside 463-1166 SYRANQAYIAQVDQKVAPLGQTVQNLSPAQRDVLAVLPLLNAVKHLADDAPSWAEGLGLYQGDMLEAESGSVYRKLLIAVFAPRLLTRIEEQLHSGGNSDFLYEGLKAYLMLADTEHYDADFIKAWIALDWDRSLPRDLPAEQRQALTAHLQALFERRPPLARLDARLVEDLRRQLQQLPVAQRVYDRIKRQKLPEGIPDFRINEAAGRDAALVFSRKSGKPLGEPLSGFFTVKGYRQGFLLTSLSQTGTLAEEQWVLGHEEADQQNVASLAADVRRLYFQDYLRQWDALLADIDFVPITSVAQAADVLRVISGPTSPLKKLLVAVAKETDLQQDERLLAAQGAPVEGGVDKLKERLGSLLGQEQATQNAPAQSDDPITAHFAELNSIVSKSEGEPAAIDGLLADMNALYVQVSAMVGASGDALLGEAKNQATAAATRVSLNAERQPPLVQGLVKSVVNSTTNSMMGGVRNQLNAAWTSEVVNIYRQSLAGRYPMSPGSARDATLDDFGQFFGVGGVMDNYFRKYLQPYVDTSTPTWRWQPGAAQKLGIAPGVLQTFQRAATIRDAFFRSGGTQPMVRFELKPVAMDSTITQFLLDLDGQQLSYDHGPSRPTAMQWPNPGSIGVVRISIMPPSSSGRSGITLDGPWAWFRLLEQSDLTAGNSPDRFNLRLRVDGASASYELRANSAFNPFKSRVLSGFSLPERL



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 0.9975 - -



  Protein sequence: 1167 a.a.    

>T6CP005727 NC_016830:c6675886-6672386 [Pseudomonas fluorescens F113] [TssM]
VKAFFSFMTRWVIPLLGLIALSLIIWFVGPLLDWLVPEGRRWALIILVFAVWIAYRVLRIIQARRQAAEVMRSLAAQTPP
DPTSIATAEELETLRQRMDEALALLKKAKLGGDERRNLYELPWYVIIGPPGSGKTTALVNSGLHFPLAAQLGAGAVRGVG
GTRNCDWWFTDQAVLLDTAGRYTTQDSDATIDKAAWLGFLGLLKKQRARRPIDGAFIAISLSDLLLGSDAERAAHAAAIR
LRIQELYTQLGVRFPIYLMLTKLDLVPGFMEYFDTLSKEERAQVWGMTFALDDGKSSDSPLAHLQSEFTGLEQRLNDRLV
ERLQQERDPARRDLIYGFPQQFGALKDCLQSFLEGVFKPNAFEERVLLRGVYFTSGTQEGSPIDRLIGSMAQSMNLDRQH
LARQTGTGRSYFIEKLFTAVAFAERGLVGVDPKVERRRKWIARGVLASTVVLVLVVSTLWWVSYRANQAYIAQVDQKVAP
LGQTVQNLSPAQRDVLAVLPLLNAVKHLADDAPSWAEGLGLYQGDMLEAESGSVYRKLLIAVFAPRLLTRIEEQLHSGGN
SDFLYEGLKAYLMLADTEHYDADFIKAWIALDWDRSLPRDLPAEQRQALTAHLQALFERRPPLARLDARLVEDLRRQLQQ
LPVAQRVYDRIKRQKLPEGIPDFRINEAAGRDAALVFSRKSGKPLGEPLSGFFTVKGYRQGFLLTSLSQTGTLAEEQWVL
GHEEADQQNVASLAADVRRLYFQDYLRQWDALLADIDFVPITSVAQAADVLRVISGPTSPLKKLLVAVAKETDLQQDERL
LAAQGAPVEGGVDKLKERLGSLLGQEQATQNAPAQSDDPITAHFAELNSIVSKSEGEPAAIDGLLADMNALYVQVSAMVG
ASGDALLGEAKNQATAAATRVSLNAERQPPLVQGLVKSVVNSTTNSMMGGVRNQLNAAWTSEVVNIYRQSLAGRYPMSPG
SARDATLDDFGQFFGVGGVMDNYFRKYLQPYVDTSTPTWRWQPGAAQKLGIAPGVLQTFQRAATIRDAFFRSGGTQPMVR
FELKPVAMDSTITQFLLDLDGQQLSYDHGPSRPTAMQWPNPGSIGVVRISIMPPSSSGRSGITLDGPWAWFRLLEQSDLT
AGNSPDRFNLRLRVDGASASYELRANSAFNPFKSRVLSGFSLPERL*

  Nucleotide sequence: 3501 bp    

>T6CP005727 NC_016830:c6675886-6672386 [Pseudomonas fluorescens F113] [TssM]
GTGAAGGCGTTTTTCAGTTTTATGACCCGCTGGGTCATCCCATTGCTGGGGCTGATCGCCCTGAGCCTGATCATCTGGTT
CGTTGGCCCGCTCCTCGATTGGCTGGTGCCCGAAGGCCGCCGCTGGGCCTTGATCATCCTGGTGTTTGCGGTATGGATCG
CCTACCGGGTATTGCGCATTATCCAGGCGCGCCGTCAGGCCGCCGAAGTGATGCGCAGCCTGGCCGCGCAAACCCCACCG
GACCCGACCAGCATCGCCACCGCCGAGGAGCTCGAAACCCTGCGCCAGCGCATGGACGAAGCCTTGGCCCTGCTCAAGAA
AGCCAAGCTGGGCGGTGACGAGCGCCGCAACCTCTACGAGCTACCGTGGTACGTGATCATCGGCCCGCCGGGTTCGGGCA
AGACCACCGCGCTGGTCAATTCCGGGCTGCATTTCCCACTGGCCGCGCAACTGGGCGCCGGTGCCGTACGCGGTGTCGGC
GGTACACGCAATTGCGATTGGTGGTTCACCGACCAGGCGGTCCTGCTCGACACCGCCGGCCGCTACACCACCCAGGACAG
CGACGCGACCATCGACAAGGCCGCCTGGCTGGGCTTCCTTGGCCTGTTGAAAAAACAACGGGCCCGGCGCCCGATTGATG
GCGCGTTCATCGCCATCAGCCTGTCCGACCTGCTGCTGGGCAGCGACGCCGAGCGCGCCGCCCATGCCGCCGCAATCCGG
CTGCGGATCCAGGAGCTGTACACCCAACTGGGCGTGCGCTTCCCGATCTACCTGATGCTGACCAAGCTCGACCTCGTGCC
CGGATTCATGGAGTATTTCGATACCCTGAGCAAGGAAGAGCGCGCCCAGGTCTGGGGCATGACCTTCGCCCTGGACGATG
GCAAGAGCAGCGACAGCCCGCTGGCGCACCTGCAAAGTGAGTTCACCGGCCTTGAGCAGCGCCTCAACGACCGCTTGGTG
GAACGCCTGCAACAAGAGCGCGACCCGGCGCGGCGCGATCTGATCTACGGTTTCCCGCAGCAGTTCGGCGCCTTGAAAGA
TTGCCTGCAAAGCTTCCTCGAAGGCGTGTTCAAACCCAACGCCTTCGAAGAGCGTGTGTTGCTGCGCGGCGTGTATTTCA
CCAGTGGCACCCAGGAAGGCAGCCCGATCGATCGCCTGATCGGCTCCATGGCCCAGAGCATGAACCTGGATCGTCAGCAC
CTGGCGCGCCAGACCGGCACCGGGCGCAGCTACTTCATCGAAAAACTCTTCACCGCCGTGGCCTTCGCCGAGCGCGGGCT
GGTGGGCGTCGATCCGAAAGTCGAGCGGCGGCGCAAGTGGATCGCCCGCGGCGTTCTGGCCTCCACCGTGGTGTTGGTGT
TGGTGGTCAGCACGTTGTGGTGGGTCAGCTACCGCGCCAACCAGGCCTACATTGCCCAGGTCGACCAGAAGGTCGCGCCA
TTGGGGCAAACCGTGCAGAACCTCAGCCCGGCGCAACGCGACGTCCTCGCCGTGTTGCCGTTGCTCAACGCCGTGAAACA
TCTTGCTGACGACGCACCGAGCTGGGCCGAAGGCCTGGGCCTTTACCAGGGCGACATGCTCGAAGCCGAGTCCGGCAGTG
TCTATCGCAAGCTGCTGATCGCAGTGTTCGCGCCACGCTTGCTGACGCGCATCGAAGAGCAACTGCACAGCGGCGGCAAT
TCGGATTTCCTCTACGAAGGCCTGAAGGCCTACCTGATGCTCGCCGACACCGAGCATTACGATGCCGACTTCATCAAGGC
CTGGATCGCCCTGGATTGGGACCGCAGCCTGCCACGGGATTTGCCGGCCGAGCAACGCCAGGCCCTGACCGCGCATTTGC
AGGCGCTGTTCGAGCGGCGTCCGCCACTCGCGCGCCTCGATGCTCGCCTGGTCGAAGACCTGCGCCGCCAGTTGCAGCAA
TTGCCGGTGGCCCAGCGGGTCTACGACCGGATCAAGCGCCAGAAACTGCCTGAAGGCATCCCGGACTTCCGCATCAACGA
AGCCGCCGGGCGTGATGCGGCGCTGGTGTTCAGCCGCAAGAGCGGCAAGCCATTGGGCGAGCCGCTGAGCGGGTTCTTCA
CCGTCAAGGGCTATCGCCAGGGCTTCCTGCTCACCAGCCTGAGCCAGACCGGCACCCTGGCCGAAGAGCAATGGGTGCTG
GGCCACGAAGAGGCCGATCAGCAGAACGTCGCCAGCCTGGCCGCCGATGTGCGTCGCCTGTACTTCCAGGATTACCTGCG
CCAATGGGACGCCTTGCTGGCCGACATCGACTTTGTGCCGATCACCAGCGTGGCCCAGGCCGCCGATGTGCTGCGGGTGA
TTTCCGGCCCGACCTCACCGTTGAAAAAGCTGTTGGTGGCGGTGGCGAAGGAAACCGACCTGCAACAGGATGAACGCCTG
CTGGCCGCCCAAGGTGCGCCGGTAGAAGGCGGTGTGGACAAACTCAAGGAACGCCTGGGCAGCTTGCTCGGCCAGGAGCA
GGCGACGCAAAACGCGCCGGCGCAAAGCGATGACCCGATCACCGCGCACTTCGCCGAGCTCAACAGCATCGTCAGCAAAA
GCGAAGGCGAGCCGGCGGCCATCGACGGCTTGCTGGCGGACATGAACGCTTTGTACGTGCAGGTCAGCGCCATGGTCGGT
GCCAGCGGCGACGCCTTGCTCGGCGAAGCCAAGAACCAGGCCACGGCCGCCGCTACGCGCGTCAGCCTCAACGCCGAACG
CCAGCCGCCGCTGGTGCAGGGCTTGGTCAAGTCGGTGGTCAACTCCACCACCAACAGCATGATGGGCGGGGTGCGCAACC
AACTGAACGCCGCCTGGACCAGCGAAGTGGTGAACATCTATCGCCAGTCCCTGGCCGGGCGCTATCCGATGTCGCCAGGC
AGTGCGCGGGACGCGACCCTGGATGACTTCGGCCAGTTCTTCGGCGTCGGCGGGGTGATGGACAACTACTTCCGCAAGTA
CCTGCAACCCTACGTCGACACCTCGACCCCAACCTGGCGCTGGCAGCCGGGCGCGGCGCAGAAGCTCGGTATCGCCCCTG
GCGTGCTGCAGACCTTCCAGCGCGCGGCGACCATCCGCGATGCGTTCTTCCGTTCCGGCGGCACGCAGCCGATGGTCCGT
TTCGAGCTCAAGCCGGTGGCGATGGACTCGACCATCACCCAGTTCCTGCTCGACCTCGACGGCCAGCAACTGAGCTACGA
CCACGGCCCAAGCCGCCCGACCGCCATGCAGTGGCCGAACCCGGGCAGCATCGGCGTGGTGCGGATATCGATCATGCCGC
CGTCGTCCAGCGGTCGCTCAGGCATCACCCTGGATGGGCCGTGGGCCTGGTTCCGGCTGCTGGAGCAATCGGACCTGACC
GCCGGCAACTCGCCGGACCGCTTCAACCTGCGGCTGCGGGTCGATGGCGCCAGCGCCTCTTATGAGCTGCGGGCCAACAG
CGCCTTCAACCCATTCAAGAGCCGGGTGCTCAGCGGCTTCAGCCTGCCGGAGCGGCTATGA