Detailed information of component protein


Summary

Component ID T6CP000353
Component protein type TssC
T6SS ID (Type) T6SS00042 experimental (Type i1)
Strain Pseudomonas syringae pv. tomato str. DC3000
Replicon chromosome
Sequence Protein sequence (493 a.a.); Nucleotide sequence (1479 bp)
Reference
[1] Haapalainen M, Mosorin H, Dorati F, et al. Hcp2, a secreted protein of the phytopathogen Pseudomonas syringae pv. tomato DC3000, is required for fitness for competition against bacteria and yeasts. J Bacteriol. 2012 Sep;194(18):4810-22. doi: 10.1128/JB.00611-12. Epub 2012 Jun 29. PMID: 22753062
[2] Sarris PF, Skandalis N, Kokkinidis M, et al. In silico analysis reveals multiple putative type VI secretion systems and effector proteins in Pseudomonas syringae pathovars. Mol Plant Pathol. 2010 Nov;11(6):795-804. doi: 10.1111/j.1364-3703.2010.00644.x. PMID: 21091602
[3] Boyer F, Fichant G, Berthod J, et al. Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learned from available microbial genomic resources? BMC Genomics. 2009 Mar 12;10:104. doi: 10.1186/1471-2164-10-104. PMID: 19284603
[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
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene) PSPTO_RS28115
Coordinate (Strand) 6176718..6178196 (-)
NCBI ID WP_011105492.1
RefSeq NC_004578
Uniprot ID Q87U76_PSESM, A0A0Q0CIH2_PSEUB
KEGG ID pst:PSPTO_5432
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
VipB PF05943.14 2e-130 66..365
VipB_2 PF18945.2 8.9e-45 379..489
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-492 MPSNSSAKQKSVETSEHSILDSIIAQTSLTRDDEAYDIAKRGVSAFIEELLKPQNNGEPVKKAMVDRMIAEIDAKLSRQMDEILHHPDFQSLESSWRGLQLLVDRTNFRENIKIEILNVSKDDLLEDFEDSPEVMQSGLYKHIYTAEYGQFGGQPVGAIIANYFMSPSSPDVKLMQYVSSVACMSHAPFIAAAGPKFFGLESFTGLPDLKDLKDHFEGPQFAKWQSFRQSEDSRYVGLTVPRFLLRNPYDPQENPVKSFVYKETVANSHEHYLWGNTAYAFGTKLTDSFAKFRWCPNIIGPQSGGAVEDLPLHHFESMGEIETKIPTEVLVSDRREYELAEEGFISLTMRKGSDNAAFFSASSVQKPKFFGNSAEGKAAELNYKLGTQLPYMMIVNRLAHYLKVLQREQLGSWKERTDLELELNKWIRQYVADQENPSAEVRGRRPLRAAQITVSDVEGEPGWYRVSLNVRPHFKYMGADFTLSLVGKLDKE


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 0.9866 - -


  Protein sequence: 493 a.a.    

>T6CP000353 NC_004578:c6178196-6176718 [Pseudomonas syringae pv. tomato str. DC3000] [TssC]
MPSNSSAKQKSVETSEHSILDSIIAQTSLTRDDEAYDIAKRGVSAFIEELLKPQNNGEPVKKAMVDRMIAEIDAKLSRQM
DEILHHPDFQSLESSWRGLQLLVDRTNFRENIKIEILNVSKDDLLEDFEDSPEVMQSGLYKHIYTAEYGQFGGQPVGAII
ANYFMSPSSPDVKLMQYVSSVACMSHAPFIAAAGPKFFGLESFTGLPDLKDLKDHFEGPQFAKWQSFRQSEDSRYVGLTV
PRFLLRNPYDPQENPVKSFVYKETVANSHEHYLWGNTAYAFGTKLTDSFAKFRWCPNIIGPQSGGAVEDLPLHHFESMGE
IETKIPTEVLVSDRREYELAEEGFISLTMRKGSDNAAFFSASSVQKPKFFGNSAEGKAAELNYKLGTQLPYMMIVNRLAH
YLKVLQREQLGSWKERTDLELELNKWIRQYVADQENPSAEVRGRRPLRAAQITVSDVEGEPGWYRVSLNVRPHFKYMGAD
FTLSLVGKLDKE*

  Nucleotide sequence: 1479 bp    

>T6CP000353 NC_004578:c6178196-6176718 [Pseudomonas syringae pv. tomato str. DC3000] [TssC]
ATGCCAAGCAATAGCTCAGCAAAGCAAAAAAGCGTTGAGACAAGCGAACACAGTATTCTCGACAGCATCATTGCCCAGAC
CAGTCTGACGCGTGACGACGAAGCCTATGACATCGCCAAGCGTGGCGTATCGGCCTTCATTGAAGAGCTGCTAAAGCCGC
AGAACAACGGTGAGCCGGTCAAGAAGGCAATGGTCGACCGCATGATCGCCGAGATCGATGCCAAGCTCAGCCGCCAGATG
GACGAAATCCTGCACCACCCAGACTTCCAGTCCCTGGAATCGTCGTGGCGTGGCCTGCAGTTGTTGGTCGATCGCACCAA
CTTCCGTGAAAACATCAAGATCGAAATCCTCAACGTCTCCAAAGATGATTTGCTGGAAGACTTCGAAGACTCGCCGGAAG
TGATGCAGTCGGGCCTGTACAAGCACATCTACACCGCAGAATACGGCCAGTTCGGTGGTCAGCCAGTGGGCGCGATCATC
GCCAACTACTTCATGTCTCCAAGCTCGCCTGACGTGAAACTCATGCAGTACGTATCTAGCGTAGCCTGCATGTCTCATGC
ACCGTTCATTGCTGCTGCCGGCCCGAAATTCTTCGGTCTGGAGAGCTTCACTGGCTTGCCGGACCTGAAAGATCTGAAGG
ATCACTTCGAAGGCCCGCAGTTCGCAAAATGGCAGAGCTTCCGCCAGTCGGAAGATTCCCGTTACGTCGGCCTGACCGTT
CCGCGCTTCTTGCTGCGCAATCCGTACGACCCGCAGGAAAACCCCGTCAAGTCATTCGTGTACAAGGAAACCGTCGCCAA
CAGCCACGAGCATTATCTGTGGGGCAACACGGCTTACGCGTTCGGCACCAAGCTGACCGACAGTTTCGCCAAGTTCCGCT
GGTGCCCGAACATCATCGGCCCGCAGAGCGGCGGTGCAGTTGAAGACCTGCCGTTGCACCATTTCGAAAGCATGGGCGAA
ATCGAGACCAAGATCCCTACCGAGGTTCTGGTCAGCGACCGTCGTGAATACGAACTGGCTGAGGAAGGCTTCATCTCCCT
GACCATGCGTAAGGGCAGCGACAACGCGGCGTTCTTCTCCGCCAGTTCCGTGCAGAAGCCGAAGTTCTTCGGTAACAGCG
CTGAAGGCAAGGCTGCAGAGCTGAACTACAAGCTGGGCACCCAGCTGCCGTACATGATGATCGTCAACCGCCTGGCTCAC
TACTTGAAAGTGCTGCAGCGCGAGCAACTCGGTTCGTGGAAAGAGCGTACCGATCTCGAGCTGGAACTGAACAAGTGGAT
CCGCCAGTACGTCGCAGATCAGGAGAACCCGAGCGCCGAAGTGCGCGGCCGTCGCCCGTTGCGCGCTGCCCAGATTACCG
TCAGCGACGTCGAAGGTGAACCTGGCTGGTACCGCGTCAGCCTGAACGTGCGCCCGCACTTCAAATACATGGGTGCTGAT
TTCACCCTGTCGCTGGTTGGCAAGCTGGACAAAGAGTAA