Detailed information of component protein


Summary

Component ID T6CP000334
Component protein type TssI
T6SS ID (Type) T6SS00041 insolico (Type i1)
Strain Pseudomonas syringae pv. tomato str. DC3000
Replicon chromosome
Sequence Protein sequence (681 a.a.); Nucleotide sequence (2043 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
insolico Bioinformatics investigation has been performed on this T6SS
External database links

Locus tag (Gene) PSPTO_RS13145
Coordinate (Strand) 2801756..2803798 (-)
NCBI ID WP_011104070.1
RefSeq NC_004578
Uniprot ID -
KEGG ID -
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
Phage_GPD PF05954.13 4.1e-78 30..323
Phage_base_V PF04717.14 1.6e-15 387..454
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-680 MQSEIISLPHFSLSLSDAHHDFQVFAFTGHEAISQPFCFKLDLVSEHTSLDLESLLGRSAFLKFAPDGGGIHGLIDQIAQGESGRRLTHYSITLRPHLARLEHRTDQRIFQDLTVPQIIEQVLEKHGLLATTFNFHLGTNYPKRDYCVQYGESDLHFIQRLCEEEGLHYHFEHSATAHQLVFGDDQTVFPELGPVIYRQDTALAGTKPAIQHYRLRLETRPNSHHSRDYHFEKPLLITKGSANVSRRIELQEYDYPGGFTSRDRGDHLAQRALERLNHDYLSGEGRSNQARLVSGHFLRLSEHPNKEWNDLWLLTGVRHEGRQPRVLEESACEIQNPGDFHQGYRNTFTTTPWYALYRSPLRHPKRRIFGSQTAVVTGPKGEEIHCDKHGRVKVQFHWDRDAEADDRSSCWLRVSSSWAGNRYGGMTIPRVGMEVLVTFLEGDPDRPLVSGCLYHAEHVPPYDLPAHQTRSVFKTLSSPGGGGSNELRIEDRAGQEQIYAHAQRNWDQNIKHDQKIRIGHERHDRVEANSYSEFKAQEHRLVDGDRLTEAKADDHLRVGGTRHLKLGNALLAEAGQEIHLKSADKIVLEAGMELTFKVAGSFIKIDASGVTVGGPAIHLNSGGSPGSGSGATPLLPGPTLRADTTKPGEVLAHAQRRAMRRTPRCEVCEQQAAKKRSRNG


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 0.9859 - -


  Protein sequence: 681 a.a.    

>T6CP000334 NC_004578:c2803798-2801756 [Pseudomonas syringae pv. tomato str. DC3000] [TssI]
MQSEIISLPHFSLSLSDAHHDFQVFAFTGHEAISQPFCFKLDLVSEHTSLDLESLLGRSAFLKFAPDGGGIHGLIDQIAQ
GESGRRLTHYSITLRPHLARLEHRTDQRIFQDLTVPQIIEQVLEKHGLLATTFNFHLGTNYPKRDYCVQYGESDLHFIQR
LCEEEGLHYHFEHSATAHQLVFGDDQTVFPELGPVIYRQDTALAGTKPAIQHYRLRLETRPNSHHSRDYHFEKPLLITKG
SANVSRRIELQEYDYPGGFTSRDRGDHLAQRALERLNHDYLSGEGRSNQARLVSGHFLRLSEHPNKEWNDLWLLTGVRHE
GRQPRVLEESACEIQNPGDFHQGYRNTFTTTPWYALYRSPLRHPKRRIFGSQTAVVTGPKGEEIHCDKHGRVKVQFHWDR
DAEADDRSSCWLRVSSSWAGNRYGGMTIPRVGMEVLVTFLEGDPDRPLVSGCLYHAEHVPPYDLPAHQTRSVFKTLSSPG
GGGSNELRIEDRAGQEQIYAHAQRNWDQNIKHDQKIRIGHERHDRVEANSYSEFKAQEHRLVDGDRLTEAKADDHLRVGG
TRHLKLGNALLAEAGQEIHLKSADKIVLEAGMELTFKVAGSFIKIDASGVTVGGPAIHLNSGGSPGSGSGATPLLPGPTL
RADTTKPGEVLAHAQRRAMRRTPRCEVCEQQAAKKRSRNG*

  Nucleotide sequence: 2043 bp    

>T6CP000334 NC_004578:c2803798-2801756 [Pseudomonas syringae pv. tomato str. DC3000] [TssI]
ATGCAGTCCGAAATAATCTCGCTCCCCCACTTCAGTCTGAGCCTTTCTGACGCCCACCATGACTTTCAAGTCTTCGCCTT
CACCGGTCACGAAGCCATCAGCCAGCCCTTCTGCTTCAAGCTGGATCTGGTCAGCGAGCACACTTCGCTGGATCTTGAAA
GTTTGCTGGGGCGCTCAGCGTTCCTAAAGTTTGCACCCGACGGCGGTGGAATCCATGGCCTGATCGATCAGATTGCCCAA
GGCGAATCCGGTCGACGTTTGACTCACTATTCGATCACGTTGCGCCCGCACCTGGCCCGGCTTGAGCATCGTACTGATCA
GCGTATTTTTCAGGACCTGACGGTGCCCCAGATCATTGAACAGGTACTTGAAAAGCACGGCCTGCTGGCCACCACGTTCA
ATTTTCATCTAGGAACGAACTACCCGAAACGCGATTACTGCGTGCAATACGGCGAGTCTGACTTGCACTTCATTCAGCGG
CTGTGCGAAGAAGAAGGCCTGCACTACCACTTCGAGCACAGCGCTACCGCCCATCAACTGGTGTTTGGTGACGACCAGAC
AGTGTTCCCGGAACTGGGCCCGGTTATCTACAGACAGGACACCGCCCTGGCGGGCACAAAGCCGGCCATCCAGCACTACA
GACTGCGCCTGGAGACGCGCCCCAACAGTCACCATAGCCGCGATTACCATTTCGAGAAGCCGCTGCTGATCACCAAGGGA
TCGGCCAATGTCAGTCGTCGTATCGAGCTCCAGGAATACGACTACCCGGGCGGCTTCACCAGCCGTGATCGTGGCGATCA
TCTTGCACAACGCGCGCTGGAGCGCCTCAATCACGATTACCTGTCAGGTGAAGGTCGCAGTAACCAGGCTCGGCTCGTCA
GTGGCCATTTTCTGAGGCTGAGCGAACATCCCAACAAGGAATGGAATGATCTGTGGCTGCTGACCGGCGTTCGTCATGAA
GGCCGTCAGCCGCGGGTACTTGAGGAGTCCGCATGTGAAATTCAGAACCCCGGCGACTTTCATCAGGGCTACCGCAATAC
GTTCACTACCACGCCTTGGTACGCCTTGTACCGCTCGCCCCTGCGTCATCCCAAACGAAGAATCTTCGGCAGTCAGACCG
CCGTGGTCACAGGCCCGAAAGGTGAGGAAATCCACTGCGACAAACACGGTCGGGTCAAAGTGCAGTTCCACTGGGATCGC
GACGCTGAGGCCGATGACCGGAGCAGTTGCTGGTTGCGCGTGTCATCCAGTTGGGCGGGCAATCGTTATGGCGGCATGAC
CATCCCGCGTGTCGGTATGGAAGTGCTGGTAACGTTTCTTGAGGGCGACCCCGACCGGCCACTGGTCAGTGGCTGCCTGT
ACCACGCCGAGCACGTACCGCCTTATGACCTGCCCGCCCACCAGACGCGCAGCGTATTCAAGACCTTGAGTAGTCCAGGC
GGAGGTGGCTCAAACGAGCTGCGTATCGAAGACAGGGCCGGCCAGGAGCAAATCTATGCTCACGCCCAGCGCAATTGGGA
CCAAAACATCAAACATGATCAAAAGATCCGAATTGGTCATGAGCGTCATGACCGCGTGGAAGCAAACAGCTACAGCGAGT
TCAAGGCTCAGGAACACCGTCTGGTTGATGGCGACCGGCTGACTGAAGCCAAAGCGGACGACCATCTGAGGGTAGGTGGG
ACTCGGCACCTGAAACTGGGTAATGCACTGCTGGCAGAGGCTGGGCAGGAAATCCATTTGAAGAGTGCCGACAAGATTGT
TCTGGAGGCTGGCATGGAGCTGACATTCAAAGTGGCTGGCAGCTTCATAAAGATTGACGCAAGCGGCGTGACGGTGGGAG
GGCCTGCCATCCATTTGAACTCCGGGGGAAGCCCGGGCAGTGGCTCCGGCGCAACCCCCTTGCTGCCGGGTCCGACACTG
CGAGCTGATACGACCAAGCCTGGGGAGGTTCTTGCACATGCCCAGAGGCGGGCCATGAGGCGCACGCCACGTTGTGAGGT
TTGCGAACAACAGGCTGCGAAAAAGAGGTCGCGCAATGGATAA