Detailed information of component protein


Summary

Component ID T6CP000287
Component protein type TssI
T6SS ID (Type) T6SS00035 experimental (Type i3)
Strain Pseudomonas protegens Pf-5
Replicon chromosome
Sequence Protein sequence (646 a.a.); Nucleotide sequence (1938 bp)
Reference
[1] Loper JE, Hassan KA, Mavrodi DV, et al. Comparative genomics of plant-associated Pseudomonas spp.: insights into diversity and inheritance of traits involved in multitrophic interactions. PLoS Genet. 2012 Jul;8(7):e1002784. doi: 10.1371/journal.pgen.1002784. Epub 2012 Jul 5. PMID: 22792073
[2] Russell AB, Singh P, Brittnacher M, et al. A widespread bacterial type VI secretion effector superfamily identified using a heuristic approach. Cell Host Microbe. 2012 May 17;11(5):538-49. doi: 10.1016/j.chom.2012.04.007. PMID: 22607806
[3] Hassan KA, Johnson A, Shaffer BT, et al. Inactivation of the GacA response regulator in Pseudomonas fluorescens Pf-5 has far-reaching transcriptomic consequences. Environ Microbiol. 2010 Apr;12(4):899-915. doi: 10.1111/j.1462-2920.2009.02134.x. Epub 2010 Jan 18. PMID: 20089046
[4] 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
[5] Whitney JC, Chou S, Russell AB, et al. Identification, structure, and function of a novel type VI secretion peptidoglycan glycoside hydrolase effector-immunity pair. J Biol Chem. 2013 Sep 13;288(37):26616-24. doi: 10.1074/jbc.M113.488320. Epub 2013 Jul 22. PMID: 23878199
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene) PFL_RS30890
Coordinate (Strand) 6923022..6924959 (+)
NCBI ID WP_011064262.1
RefSeq NC_004129
Uniprot ID A0A2C9EW35_PSEPH, Q4K3N1_PSEF5
KEGG ID pfl:PFL_6094, pprc:PFLCHA0_c60530
PDB ID 7Q5P
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
Phage_GPD PF05954.13 5.6e-103 30..329
Phage_base_V PF04717.14 5.9e-15 386..453
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-645 MLFQQSTRLAQVNCPLGPDVLLLKSLGGGEELGRLFDYQLQLASSDANIDLNQLLGKPMGLSVQLDGGGQRYFHGIVARCSQNIDTGQFASYEVTLRPWLWLLSRTSDCRIFQNLSIPQIIKQVFRDLGFSDFEDALSRPYREWEYCVQYRETSFDFVSRLMEQEGIYYFFRHEKDRHVVVLADAYGAHSSVPGYASVPYYPRDEQQRERDHMFDWHLAQEVQPGSLELNDYDFQRPSARIDVRSAMPRPHSAGDYPLYDYPGTYVQSSDGEHYAQTRIEALQSLHERIELSGNARGLGVGNLFSLTGFSRQDQNREYLIVSIRYYLVQESLESGAGGGSAQFESHLTCIDAQQSFRPLATTHKPMVQGPQTARVVGPAGEEIWTDQYGRVKVHFHWDRHDQSNENSSCWIRVSQAWAGKNWGSMQIPRIGQEVIVSFLEGDPDRPIITGRVYNAEQTVPYDLPANATQSGMKSRSSKGGSPANFNEIRMEDKKGAEQLYIHAERNQDIVVEVNESHSVGNNRNKSIGHDEYVTIGNKRTRIVQHVDELRVGEKKLDSVGQSYVIEVGERLRLVCGASILELNASGQINLCGVNISVHASADAQINTGGVLHLNNGGGPGTTTEGQGVQGAISAKAKAPFSAPKG


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 0.9890 - -


  Protein sequence: 646 a.a.    

>T6CP000287 NC_004129:6923022-6924959 [Pseudomonas protegens Pf-5] [TssI]
MLFQQSTRLAQVNCPLGPDVLLLKSLGGGEELGRLFDYQLQLASSDANIDLNQLLGKPMGLSVQLDGGGQRYFHGIVARC
SQNIDTGQFASYEVTLRPWLWLLSRTSDCRIFQNLSIPQIIKQVFRDLGFSDFEDALSRPYREWEYCVQYRETSFDFVSR
LMEQEGIYYFFRHEKDRHVVVLADAYGAHSSVPGYASVPYYPRDEQQRERDHMFDWHLAQEVQPGSLELNDYDFQRPSAR
IDVRSAMPRPHSAGDYPLYDYPGTYVQSSDGEHYAQTRIEALQSLHERIELSGNARGLGVGNLFSLTGFSRQDQNREYLI
VSIRYYLVQESLESGAGGGSAQFESHLTCIDAQQSFRPLATTHKPMVQGPQTARVVGPAGEEIWTDQYGRVKVHFHWDRH
DQSNENSSCWIRVSQAWAGKNWGSMQIPRIGQEVIVSFLEGDPDRPIITGRVYNAEQTVPYDLPANATQSGMKSRSSKGG
SPANFNEIRMEDKKGAEQLYIHAERNQDIVVEVNESHSVGNNRNKSIGHDEYVTIGNKRTRIVQHVDELRVGEKKLDSVG
QSYVIEVGERLRLVCGASILELNASGQINLCGVNISVHASADAQINTGGVLHLNNGGGPGTTTEGQGVQGAISAKAKAPF
SAPKG*

  Nucleotide sequence: 1938 bp    

>T6CP000287 NC_004129:6923022-6924959 [Pseudomonas protegens Pf-5] [TssI]
ATGTTATTTCAGCAATCCACACGACTGGCACAGGTCAACTGCCCCCTGGGCCCGGACGTCCTGCTGCTCAAGAGCCTGGG
CGGCGGCGAGGAGCTGGGGCGGCTGTTCGACTACCAGCTGCAACTGGCCTCCAGTGACGCCAACATCGACCTCAACCAGT
TGCTGGGCAAGCCCATGGGCCTCAGCGTACAGCTGGACGGCGGCGGCCAGCGGTACTTCCACGGCATCGTCGCGCGCTGC
AGCCAGAACATCGACACCGGCCAGTTCGCCAGCTACGAGGTGACGCTGCGCCCCTGGCTGTGGCTGCTGAGCCGCACCTC
CGACTGCCGGATCTTCCAGAACCTGAGCATCCCGCAGATCATCAAGCAGGTGTTCCGCGACCTGGGCTTTTCCGATTTCG
AAGACGCCCTGAGCCGCCCCTACCGGGAGTGGGAGTACTGCGTGCAGTACCGCGAGACCAGCTTCGATTTCGTCAGCCGG
CTGATGGAACAGGAAGGTATCTACTACTTCTTCCGCCACGAGAAGGACCGCCACGTGGTGGTGCTGGCCGACGCCTATGG
CGCTCACAGCAGCGTGCCCGGCTACGCCTCGGTGCCCTACTACCCGCGAGACGAGCAGCAGCGCGAGCGCGACCACATGT
TCGACTGGCACCTGGCCCAGGAGGTGCAGCCCGGCTCGCTGGAGCTCAACGACTATGATTTCCAGCGCCCCAGCGCCCGG
ATCGACGTGCGCTCGGCCATGCCGCGGCCCCACAGCGCCGGCGACTACCCGCTCTACGACTACCCCGGCACCTACGTGCA
GAGCAGCGACGGCGAGCACTATGCCCAGACCCGCATCGAGGCCCTGCAAAGCCTGCATGAGCGCATCGAGCTCAGCGGCA
ACGCCCGGGGGTTGGGGGTGGGCAACCTGTTCAGCCTCACCGGCTTCAGCCGCCAGGACCAGAACCGCGAATACCTGATC
GTCAGCATCCGCTACTACCTGGTCCAGGAAAGCCTGGAGAGCGGCGCTGGCGGCGGCTCGGCGCAGTTCGAGAGCCACCT
GACCTGCATCGACGCCCAGCAGAGCTTCCGCCCCCTGGCCACCACCCACAAGCCCATGGTCCAGGGCCCGCAGACCGCGC
GAGTGGTGGGCCCGGCCGGGGAAGAGATCTGGACCGACCAGTACGGCCGGGTCAAGGTGCACTTCCACTGGGACCGCCAC
GACCAGTCCAACGAAAACAGCTCGTGCTGGATTCGCGTGTCCCAGGCCTGGGCCGGGAAGAACTGGGGCTCGATGCAGAT
CCCGCGCATCGGCCAGGAAGTCATCGTCAGCTTCCTGGAAGGCGATCCCGATCGCCCGATCATCACCGGCCGGGTCTACA
ACGCCGAACAGACCGTGCCCTACGACCTGCCCGCCAACGCCACCCAGAGCGGCATGAAGAGCCGTTCGAGCAAGGGCGGC
AGCCCGGCCAACTTCAATGAAATCCGCATGGAAGACAAAAAGGGCGCGGAGCAGCTGTACATCCACGCCGAGCGCAACCA
GGACATCGTGGTCGAGGTCAACGAAAGCCATTCGGTGGGCAACAACCGCAACAAGAGCATCGGCCACGACGAGTACGTGA
CCATCGGCAACAAGCGCACGCGCATCGTCCAGCACGTGGATGAGCTGCGGGTCGGCGAGAAGAAGCTCGACAGCGTCGGC
CAGAGCTATGTGATCGAGGTCGGCGAGCGCCTGCGCCTGGTATGCGGGGCCAGCATCCTAGAGCTCAACGCCAGCGGCCA
GATCAACCTGTGCGGGGTCAACATCAGCGTGCATGCCTCGGCCGATGCCCAGATCAATACCGGTGGCGTGCTGCACCTGA
ACAACGGCGGCGGCCCGGGCACCACCACCGAGGGCCAGGGTGTGCAGGGCGCCATCAGCGCCAAGGCCAAAGCCCCCTTT
TCCGCCCCCAAAGGCTAA