Detailed information of component protein


Summary

Component ID T6CP000344
Component protein type TssI
T6SS ID (Type) T6SS00042 experimental (Type i1)
Strain Pseudomonas syringae pv. tomato str. DC3000
Replicon chromosome
Sequence Protein sequence (679 a.a.); Nucleotide sequence (2037 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_RS28015
Coordinate (Strand) 6153553..6155589 (-)
NCBI ID WP_011105476.1
RefSeq NC_004578
Uniprot ID Q87U92_PSESM, A0A0Q0B8Y4_PSEUB
KEGG ID pst:PSPTO_5415
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
Phage_GPD PF05954.13 1.2e-75 29..326
Phage_base_V PF04717.14 6e-14 392..459
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-678 MFNPSNETHFSLTVKDFSGDLQVLSFTGTEGISQPFSFDLELVSENPDIDLETLLHKQAFLAFDPQGNGIHGQIYRVAQGDAGKRLTRYTLSLVPQLQYLHHRTNQRIYQQMSAQQIIALILEEHGIKSNGYSFQLGQPCPARDYCVQYDETDLHFVQRLCEEEGVHYHFQHSQEGHVLVFGDDQTVFPKLSGPTAYVQGSGLVADVPVIKGFQLRLETRTGRVTRRDYDFEKPKLQLEAAYKPANESNEPDLEDYDYPGRFVDRARGKFLSQRALERHRADYQQAEGWGDQTALKSGHFLPLSEHPRAEWNDLWLLTEIVHEGKQPQVLEESVTSDTTNNKDDFHHGYRNRFLATPWAVLYRPALNHPKPRVLGSQTAVVTGPKGEEIHCDQYGRVKVQFFWDREGLADDKTSCWLRVSSGWAGDRYGGISIPRVGMEVLVSFLEGDPDQPLVTGCLYHKENQVPYPLPTNKTRTVFKTFSSPGGGGYNELRIEDKKGAEQIFIHAQRDWDENIENDQKIRVGNERHDTVEKNTYTELKAEEHRTTHADRKTEVRMDDHLTVAQNQHVKLGTAQLTSAGTEIHLKAGEKIVIEAGVELTVKAGGSFIKLDAGGITMIGPIANVNAGGSAGTGTGIGIKPPRLPGVVDQDKAGSLMDPALVNAPPEKVEPKAVFVFSE


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 0.9871 - -


  Protein sequence: 679 a.a.    

>T6CP000344 NC_004578:c6155589-6153553 [Pseudomonas syringae pv. tomato str. DC3000] [TssI]
MFNPSNETHFSLTVKDFSGDLQVLSFTGTEGISQPFSFDLELVSENPDIDLETLLHKQAFLAFDPQGNGIHGQIYRVAQG
DAGKRLTRYTLSLVPQLQYLHHRTNQRIYQQMSAQQIIALILEEHGIKSNGYSFQLGQPCPARDYCVQYDETDLHFVQRL
CEEEGVHYHFQHSQEGHVLVFGDDQTVFPKLSGPTAYVQGSGLVADVPVIKGFQLRLETRTGRVTRRDYDFEKPKLQLEA
AYKPANESNEPDLEDYDYPGRFVDRARGKFLSQRALERHRADYQQAEGWGDQTALKSGHFLPLSEHPRAEWNDLWLLTEI
VHEGKQPQVLEESVTSDTTNNKDDFHHGYRNRFLATPWAVLYRPALNHPKPRVLGSQTAVVTGPKGEEIHCDQYGRVKVQ
FFWDREGLADDKTSCWLRVSSGWAGDRYGGISIPRVGMEVLVSFLEGDPDQPLVTGCLYHKENQVPYPLPTNKTRTVFKT
FSSPGGGGYNELRIEDKKGAEQIFIHAQRDWDENIENDQKIRVGNERHDTVEKNTYTELKAEEHRTTHADRKTEVRMDDH
LTVAQNQHVKLGTAQLTSAGTEIHLKAGEKIVIEAGVELTVKAGGSFIKLDAGGITMIGPIANVNAGGSAGTGTGIGIKP
PRLPGVVDQDKAGSLMDPALVNAPPEKVEPKAVFVFSE*

  Nucleotide sequence: 2037 bp    

>T6CP000344 NC_004578:c6155589-6153553 [Pseudomonas syringae pv. tomato str. DC3000] [TssI]
ATGTTCAATCCTTCTAACGAAACGCACTTCAGTCTGACCGTCAAAGATTTTTCAGGCGACCTGCAAGTGTTGTCGTTTAC
AGGTACTGAAGGCATCAGCCAACCGTTCAGTTTCGACCTGGAGCTGGTCAGCGAAAACCCCGACATCGATCTGGAGACGC
TTTTGCACAAGCAGGCGTTTCTGGCGTTCGATCCCCAGGGGAATGGCATCCACGGGCAGATCTACCGCGTTGCCCAAGGC
GACGCTGGCAAGCGCCTGACGCGTTACACCCTGTCTTTGGTACCGCAGTTGCAGTACCTGCATCATCGTACCAACCAGCG
TATCTATCAGCAGATGTCGGCGCAGCAAATCATCGCGCTGATCCTGGAAGAGCATGGCATCAAGAGTAACGGCTACAGCT
TTCAGCTCGGCCAGCCATGCCCGGCGCGCGATTACTGCGTGCAATACGATGAAACCGATCTGCACTTCGTCCAGAGGCTG
TGCGAGGAAGAGGGGGTTCACTACCACTTCCAGCACAGCCAGGAAGGGCATGTGCTGGTCTTCGGCGATGACCAAACGGT
CTTCCCCAAGCTGAGTGGGCCCACGGCGTATGTGCAAGGCAGCGGCCTGGTCGCTGACGTGCCGGTCATCAAGGGATTCC
AACTGCGTCTGGAAACCCGCACAGGCCGTGTGACCCGACGCGACTACGACTTCGAGAAGCCGAAACTGCAACTTGAAGCC
GCTTACAAACCTGCCAACGAAAGTAACGAGCCGGACCTGGAGGATTATGACTACCCAGGCCGCTTCGTCGATCGCGCGCG
GGGCAAGTTCCTCAGCCAGCGTGCGCTGGAACGTCATCGTGCCGATTATCAGCAAGCCGAAGGCTGGGGCGATCAGACCG
CGCTCAAGAGTGGGCATTTTCTTCCGTTATCCGAGCACCCTCGCGCGGAGTGGAACGACTTGTGGCTGCTGACTGAAATC
GTCCATGAAGGCAAACAGCCGCAAGTGTTGGAAGAGTCGGTCACTAGCGACACCACCAACAACAAGGACGACTTCCACCA
CGGCTATCGCAACCGATTCCTGGCAACCCCGTGGGCGGTTTTATATCGCCCGGCGCTGAACCACCCCAAGCCTCGGGTAC
TCGGCAGCCAAACCGCCGTGGTCACCGGCCCCAAGGGTGAAGAAATCCACTGCGACCAGTATGGCCGCGTGAAAGTGCAG
TTTTTCTGGGACCGCGAAGGCCTGGCCGATGACAAGACCAGTTGCTGGCTGCGCGTCTCCAGCGGGTGGGCGGGCGACCG
CTACGGCGGCATCAGCATCCCGCGCGTAGGTATGGAAGTGCTGGTGTCATTCCTTGAGGGCGACCCGGACCAACCGCTGG
TGACCGGCTGCCTGTACCACAAGGAAAACCAGGTGCCGTACCCGCTGCCGACCAACAAGACCCGCACAGTATTCAAGACC
TTCAGTTCCCCTGGCGGTGGCGGCTACAACGAACTGCGCATCGAAGATAAAAAAGGCGCCGAACAGATTTTCATCCATGC
CCAGCGGGACTGGGACGAAAACATCGAAAACGACCAGAAAATCCGCGTTGGCAACGAACGCCACGACACGGTCGAAAAGA
ACACCTACACCGAGCTGAAAGCCGAAGAACACCGCACCACCCACGCCGACCGCAAGACCGAAGTCCGCATGGACGACCAC
CTGACGGTTGCGCAGAACCAGCACGTGAAACTGGGCACCGCGCAACTGACCAGCGCAGGCACCGAGATTCACTTGAAGGC
GGGCGAAAAGATTGTTATCGAGGCGGGCGTGGAGCTCACCGTGAAGGCGGGCGGGAGCTTCATCAAGCTCGACGCGGGCG
GGATAACCATGATCGGTCCGATCGCGAACGTCAACGCTGGAGGCTCCGCCGGAACCGGCACCGGGATTGGCATCAAGCCG
CCTAGATTGCCGGGGGTTGTGGATCAGGACAAGGCGGGGAGTTTGATGGATCCGGCGTTGGTGAATGCACCGCCTGAGAA
AGTTGAACCGAAGGCTGTTTTTGTGTTTTCTGAGTGA