Detailed information of component protein


Summary

Component ID T6CP005718
Component protein type TssH
T6SS ID (Type) T6SS00539 experimental (Type i4a)
Strain Pseudomonas fluorescens F113
Replicon chromosome
Sequence Protein sequence (848 a.a.); Nucleotide sequence (2544 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_RS42590
Coordinate (Strand) 2810386..2812929 (-)
NCBI ID WP_014337901.1
RefSeq NC_016830
Uniprot ID G8QBH3_PSEF3
KEGG ID pfe:PSF113_2411
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
AAA_2 PF07724.16 1.4e-35 609..773
AAA_lid_9 PF17871.3 1.3e-29 360..451
Clp_N PF02861.22 4.5e-10 21..72
AAA PF00004.31 1.1e-09 218..323
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-847 MELASLIGRLNPDNRRALERAAQRCMQRSHHYVEIEHLLLELLDIEGGDFACLLPRFGLERDAVATETNKALDLFKSGSTRTPALSAQTIGLLEDAVVQASVLGLDSIRSGLLLLALLDRDERRSLLLNSASSLLRIPRDALRAHLLEWTESSREHVGGVRPTKPGEPPQKQDPVLDQYTQDLTADARAGRIDPIVGRDGEIRQCIDILLRRRQNNPILVGAPGVGKTAVVEGLALRIAAGDVPPSLQEVTLRVLDLGLLQAGAGVKGEFEQRLKGVIDAVRSAEKPIILFIDEAHTLIGAGGAEGGSDAANLLKPALARGELRTLAATTWLEYKKYFEKDPALARRFQLVQVEEPDELTAVEMLRGVASKLEQHHGVQVLDAAIHEAVKLSHRYISGRQLPDKAISVLDTACARVALGQHDVPPPLESLRHRQNSLKDEVERLRREQATGLDHRERITLLEGESTSNVQAIRELETRWGEEREAVRELLDTRRELLALSERADSEKADTEIDNRIDHLAAELLRLEAGLDAIRQDDPLVPEQVDSKTVAAVIAGWTGIPVGKMLADEAHAVRTLGQRMGQRVMGQSTALNTIAQRLQAYRAGLTDPQKPVGVFLLVGPTGVGKTETAYALADALYGGERNLISINLSEYQEAHTVSQLKGAPPGYVGYGSGGVLTEAVRRKPYSVVLLDEIEKAHPDVLEAFYNVFDKGLMEDGTGLVVDFKNTVMLATSNVGAELLLDTPTAQLGSDAFNEALHKVLLQAFRPAFLARMTVVAYRPLDEATLEGIVLAKLEKLRGRYKAATGKQFEFDAGIVKAVLAKCSAAGARDVENVLMTQVTGKLAEWVLE


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 0.9968 - -


  Protein sequence: 848 a.a.    

>T6CP005718 NC_016830:c2812929-2810386 [Pseudomonas fluorescens F113] [TssH]
MELASLIGRLNPDNRRALERAAQRCMQRSHHYVEIEHLLLELLDIEGGDFACLLPRFGLERDAVATETNKALDLFKSGST
RTPALSAQTIGLLEDAVVQASVLGLDSIRSGLLLLALLDRDERRSLLLNSASSLLRIPRDALRAHLLEWTESSREHVGGV
RPTKPGEPPQKQDPVLDQYTQDLTADARAGRIDPIVGRDGEIRQCIDILLRRRQNNPILVGAPGVGKTAVVEGLALRIAA
GDVPPSLQEVTLRVLDLGLLQAGAGVKGEFEQRLKGVIDAVRSAEKPIILFIDEAHTLIGAGGAEGGSDAANLLKPALAR
GELRTLAATTWLEYKKYFEKDPALARRFQLVQVEEPDELTAVEMLRGVASKLEQHHGVQVLDAAIHEAVKLSHRYISGRQ
LPDKAISVLDTACARVALGQHDVPPPLESLRHRQNSLKDEVERLRREQATGLDHRERITLLEGESTSNVQAIRELETRWG
EEREAVRELLDTRRELLALSERADSEKADTEIDNRIDHLAAELLRLEAGLDAIRQDDPLVPEQVDSKTVAAVIAGWTGIP
VGKMLADEAHAVRTLGQRMGQRVMGQSTALNTIAQRLQAYRAGLTDPQKPVGVFLLVGPTGVGKTETAYALADALYGGER
NLISINLSEYQEAHTVSQLKGAPPGYVGYGSGGVLTEAVRRKPYSVVLLDEIEKAHPDVLEAFYNVFDKGLMEDGTGLVV
DFKNTVMLATSNVGAELLLDTPTAQLGSDAFNEALHKVLLQAFRPAFLARMTVVAYRPLDEATLEGIVLAKLEKLRGRYK
AATGKQFEFDAGIVKAVLAKCSAAGARDVENVLMTQVTGKLAEWVLE*

  Nucleotide sequence: 2544 bp    

>T6CP005718 NC_016830:c2812929-2810386 [Pseudomonas fluorescens F113] [TssH]
ATGGAACTGGCCAGCCTGATCGGACGCCTCAACCCGGACAACCGCCGCGCCCTGGAACGGGCCGCGCAACGCTGCATGCA
GCGCAGCCATCACTATGTGGAAATCGAACATCTGCTGTTGGAATTGCTCGACATCGAGGGCGGCGACTTTGCCTGCCTGC
TGCCGCGCTTCGGGCTGGAGCGTGACGCGGTGGCGACGGAAACCAACAAGGCCCTGGACCTGTTCAAATCCGGCAGCACC
CGCACGCCCGCCTTGTCGGCACAAACCATCGGCCTGTTGGAAGACGCCGTGGTCCAGGCCAGTGTGCTGGGCCTGGACAG
CATCCGCTCCGGGCTGTTGCTATTGGCGCTGCTGGACCGTGATGAGCGCCGCAGCCTGCTGCTCAACAGTGCCTCGTCGT
TGCTGCGCATTCCCCGCGACGCCCTGCGCGCCCACCTATTGGAGTGGACCGAAAGCTCCCGTGAACATGTCGGTGGCGTG
CGCCCGACCAAACCCGGCGAGCCACCCCAGAAACAAGACCCGGTGCTGGACCAGTACACCCAGGACCTGACAGCCGACGC
CCGGGCCGGGCGCATCGACCCCATCGTTGGCCGCGACGGCGAGATCCGCCAGTGCATCGACATCCTGCTCCGGCGCCGGC
AGAACAACCCGATCCTGGTCGGCGCACCGGGCGTCGGCAAGACTGCGGTGGTGGAAGGCCTGGCCCTGCGTATCGCCGCC
GGGGATGTGCCGCCGTCGTTGCAGGAAGTCACCCTGCGTGTCCTCGACCTGGGCCTGTTGCAGGCCGGTGCCGGCGTCAA
AGGTGAATTCGAACAGCGCCTCAAGGGTGTGATCGACGCGGTACGCAGTGCCGAAAAGCCGATCATCCTGTTCATCGACG
AAGCCCATACGCTGATCGGCGCCGGCGGTGCGGAAGGCGGCAGCGATGCGGCCAACCTGCTCAAGCCCGCCCTGGCCCGG
GGCGAACTGCGCACCCTGGCCGCAACCACCTGGCTGGAATACAAAAAATATTTCGAGAAAGACCCGGCCCTGGCCCGCCG
CTTCCAACTGGTACAGGTCGAAGAACCGGACGAACTCACCGCCGTGGAAATGCTCCGGGGCGTGGCCAGCAAACTGGAAC
AGCACCACGGCGTGCAGGTGCTGGACGCGGCCATCCACGAGGCAGTGAAGCTGTCCCACCGCTACATCTCCGGGCGACAG
TTGCCGGACAAGGCCATCAGCGTGCTCGACACCGCCTGCGCCCGGGTCGCCCTCGGCCAGCACGACGTACCGCCGCCGCT
GGAAAGCCTGCGCCATCGGCAGAACAGCCTCAAGGACGAGGTCGAACGCCTGCGCCGGGAACAGGCGACCGGGCTCGATC
ACCGCGAGCGCATAACCCTGCTCGAAGGCGAATCGACCAGCAACGTGCAAGCCATCCGCGAACTGGAAACCCGCTGGGGC
GAAGAGCGCGAAGCCGTGCGCGAACTGCTCGACACCCGGCGCGAACTGCTTGCCCTGAGCGAACGCGCCGACAGTGAAAA
AGCCGACACCGAGATCGATAACCGCATCGACCACCTGGCCGCCGAACTGCTGCGCCTGGAGGCGGGCCTGGATGCCATTC
GCCAGGACGATCCGCTGGTGCCCGAACAAGTGGACAGCAAGACCGTCGCCGCCGTGATTGCCGGCTGGACCGGCATTCCG
GTCGGCAAGATGCTCGCCGACGAAGCCCACGCCGTGCGCACCCTCGGCCAGCGCATGGGCCAGCGGGTCATGGGCCAGAG
CACCGCGCTGAACACCATCGCCCAACGCCTGCAAGCCTACCGCGCCGGCCTCACCGACCCACAGAAACCGGTTGGCGTGT
TCCTGCTGGTGGGCCCCACCGGCGTGGGAAAGACCGAAACCGCCTACGCCCTGGCCGACGCCTTGTACGGCGGTGAGCGC
AACCTGATCAGCATCAACCTCTCGGAGTACCAGGAAGCCCACACCGTCAGCCAACTCAAAGGCGCCCCACCCGGCTACGT
CGGCTACGGCAGCGGCGGTGTGCTCACCGAAGCGGTACGGCGCAAACCCTATTCGGTGGTGCTGCTGGATGAAATCGAAA
AGGCCCACCCGGATGTGCTTGAAGCCTTCTACAACGTCTTCGACAAAGGCCTGATGGAAGACGGCACCGGCCTGGTGGTG
GACTTCAAGAACACCGTGATGCTCGCCACCAGCAACGTCGGTGCCGAACTGTTGCTGGACACGCCGACCGCGCAACTGGG
CAGCGACGCCTTCAACGAAGCCTTGCACAAGGTGCTGCTGCAAGCGTTCCGTCCGGCATTTTTGGCACGCATGACCGTGG
TGGCGTACCGGCCGCTGGATGAAGCGACGCTGGAGGGGATTGTGCTGGCGAAGCTGGAAAAATTGCGCGGGCGCTACAAG
GCCGCGACCGGCAAGCAGTTCGAGTTCGATGCGGGGATCGTCAAGGCTGTGTTGGCCAAGTGCAGCGCGGCGGGAGCACG
GGACGTCGAGAATGTGCTGATGACCCAAGTGACGGGGAAGTTGGCGGAGTGGGTGTTGGAATGA