Detailed information of component protein


Summary

Component ID T6CP000355
Component protein type TssI
T6SS ID (Type) T6SS00042 experimental (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
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene) PSPTO_RS28135
Coordinate (Strand) 6181756..6183798 (+)
NCBI ID WP_011105496.1
RefSeq NC_004578
Uniprot ID Q87U72_PSESM, A0A0Q0HG84_PSEUB
KEGG ID pst:PSPTO_5436
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
Phage_GPD PF05954.13 7.2e-79 29..322
Phage_base_V PF04717.14 7.7e-15 388..455
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-680 MFAPANQTHFSLTIEGLSNDLQVLALQGREAISQPFAFEVDLVSEQPSLDLETLLHKPAFLQLSPDGSGIHGQIYRASQGDSGKRLTRYAVTLRPQLAYLAHRTNQRIFQNLTVPKIIGIVLEEHGIQGNAYEFKVGSIYPERIYCVQYDESDLHFVQRLCEEEGIHYHFQHSTNGHTLVFGDDQTVFPKLAPVAYQQDSGMVATDPVVKRFDLRMETRTSRTTRRDYDFEKPRLTLESENRGDAIPDLEDYDYPGRFVDRERGKQLAKRALERHRSDYQLAVGKSDQPLLVSGHFLALTQHPKAKWNDLWLLTEILHEGKQPQVLEESVTSDTTDLKDDFHQGYRNRFQATPWDVPNRPPLTHPKPRILGSQSAVVTGPKGEEIHCDQYGRVKVQFPWDREGQSDDKTSCWLRVSSAWAGAMYGGIAIPRIGMEVLVTFLEGDPDQPLISGCLYHKENVVPYDLPANKTRSTFKSMSSPGGGGFNELRIEDKKGQEQIFLHAQRDWDENVENDQKIRVGNERHDTVEQNSHSEFKAEEHHTVYADRKVEARADDHLTVGANQHVKVGTGQFIEAGQEIHLSSGVKVVLEAGSELTLKAGGSFIKIDASGVTLSGPFIHVNDGGSPGNGTPAAPLMPGPLLQADADKAGAALTPAQINTLKRNAPFCEECEKCKDGACAI


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 0.9897 - -


  Protein sequence: 681 a.a.    

>T6CP000355 NC_004578:6181756-6183798 [Pseudomonas syringae pv. tomato str. DC3000] [TssI]
MFAPANQTHFSLTIEGLSNDLQVLALQGREAISQPFAFEVDLVSEQPSLDLETLLHKPAFLQLSPDGSGIHGQIYRASQG
DSGKRLTRYAVTLRPQLAYLAHRTNQRIFQNLTVPKIIGIVLEEHGIQGNAYEFKVGSIYPERIYCVQYDESDLHFVQRL
CEEEGIHYHFQHSTNGHTLVFGDDQTVFPKLAPVAYQQDSGMVATDPVVKRFDLRMETRTSRTTRRDYDFEKPRLTLESE
NRGDAIPDLEDYDYPGRFVDRERGKQLAKRALERHRSDYQLAVGKSDQPLLVSGHFLALTQHPKAKWNDLWLLTEILHEG
KQPQVLEESVTSDTTDLKDDFHQGYRNRFQATPWDVPNRPPLTHPKPRILGSQSAVVTGPKGEEIHCDQYGRVKVQFPWD
REGQSDDKTSCWLRVSSAWAGAMYGGIAIPRIGMEVLVTFLEGDPDQPLISGCLYHKENVVPYDLPANKTRSTFKSMSSP
GGGGFNELRIEDKKGQEQIFLHAQRDWDENVENDQKIRVGNERHDTVEQNSHSEFKAEEHHTVYADRKVEARADDHLTVG
ANQHVKVGTGQFIEAGQEIHLSSGVKVVLEAGSELTLKAGGSFIKIDASGVTLSGPFIHVNDGGSPGNGTPAAPLMPGPL
LQADADKAGAALTPAQINTLKRNAPFCEECEKCKDGACAI*

  Nucleotide sequence: 2043 bp    

>T6CP000355 NC_004578:6181756-6183798 [Pseudomonas syringae pv. tomato str. DC3000] [TssI]
ATGTTCGCGCCGGCCAATCAGACTCACTTTTCCCTGACCATAGAAGGTCTTTCCAATGATCTGCAGGTTCTTGCCTTGCA
AGGTCGGGAAGCCATCAGCCAGCCTTTTGCGTTTGAGGTCGATCTGGTCAGTGAGCAGCCATCCCTGGACCTCGAAACGC
TGCTACATAAACCGGCCTTTCTGCAGCTCTCGCCTGACGGCAGCGGCATTCATGGCCAGATTTACCGCGCCTCACAGGGC
GACTCGGGCAAGCGGCTAACCCGCTACGCCGTGACCTTACGCCCGCAACTGGCCTACCTTGCCCACCGTACCAACCAGCG
TATCTTCCAGAACCTCACCGTCCCGAAAATCATCGGTATTGTTCTCGAAGAGCACGGCATTCAAGGCAACGCCTACGAAT
TCAAAGTCGGGTCGATTTATCCTGAACGCATCTACTGCGTTCAATACGATGAATCGGATCTGCACTTCGTCCAACGGCTG
TGCGAGGAAGAAGGTATCCACTACCATTTCCAGCACAGCACCAACGGCCACACACTGGTGTTCGGCGATGACCAGACGGT
GTTCCCGAAACTTGCACCAGTGGCCTACCAGCAAGACTCAGGCATGGTCGCCACCGATCCGGTGGTAAAGCGATTCGACC
TGCGCATGGAAACCCGCACTAGCCGCACGACACGCCGCGACTACGACTTCGAGAAACCGCGCCTGACGCTGGAAAGCGAA
AACCGGGGCGATGCCATCCCCGACCTTGAAGACTACGACTACCCTGGCCGCTTCGTGGATCGCGAACGCGGCAAGCAACT
GGCCAAAAGAGCACTGGAACGTCATCGCAGCGACTACCAACTGGCCGTAGGCAAGAGCGATCAGCCGCTGCTGGTCAGCG
GCCACTTTCTGGCGCTGACCCAGCACCCCAAAGCCAAATGGAACGATCTGTGGCTGCTGACCGAAATCCTGCACGAAGGC
AAACAGCCGCAGGTGCTGGAGGAGTCGGTCACCAGCGACACAACCGACCTGAAGGATGATTTCCATCAGGGCTACCGCAA
CCGCTTCCAGGCCACCCCGTGGGACGTGCCCAACCGTCCGCCGCTGACCCACCCCAAACCGCGCATTCTCGGCAGCCAAA
GTGCCGTGGTCACCGGCCCCAAAGGCGAAGAAATCCACTGCGATCAGTACGGCCGCGTCAAAGTGCAGTTCCCCTGGGAC
CGCGAAGGCCAGTCCGACGACAAGACCAGCTGCTGGCTGAGGGTCTCCTCGGCCTGGGCAGGTGCGATGTACGGCGGCAT
CGCCATTCCGCGCATCGGCATGGAAGTGCTGGTGACTTTCCTTGAAGGCGACCCCGATCAGCCGCTGATCAGTGGCTGCC
TGTACCACAAGGAAAACGTGGTTCCGTACGACCTGCCGGCTAACAAAACCCGCAGCACTTTCAAGTCCATGAGTTCACCC
GGTGGCGGCGGCTTCAACGAGCTGCGTATCGAAGACAAGAAAGGCCAGGAACAGATATTCCTGCACGCCCAGCGCGACTG
GGACGAGAACGTCGAGAACGATCAGAAGATACGCGTCGGCAACGAACGACACGACACAGTCGAGCAGAACAGCCACAGCG
AATTCAAGGCCGAAGAGCACCATACCGTCTACGCCGACCGCAAAGTCGAAGCACGGGCTGACGATCACCTCACCGTAGGT
GCGAACCAGCACGTCAAGGTCGGCACCGGTCAGTTCATCGAAGCAGGCCAAGAGATCCACCTGAGCAGCGGCGTGAAAGT
GGTGCTTGAAGCCGGTAGCGAATTGACCCTTAAGGCTGGGGGCAGCTTCATCAAGATCGACGCCAGCGGCGTGACCCTGA
GCGGCCCGTTCATCCACGTCAACGACGGCGGTAGCCCCGGCAACGGCACCCCGGCAGCCCCGCTGATGCCGGGTCCTTTG
CTGCAGGCCGATGCCGACAAGGCCGGTGCGGCTCTAACCCCGGCGCAGATCAACACCCTCAAACGCAACGCGCCGTTCTG
TGAAGAATGCGAGAAGTGCAAGGACGGTGCGTGTGCGATCTGA