Detailed information of component protein


Summary

Component ID T6CP000333
Component protein type TssB
T6SS ID (Type) T6SS00040 experimental (Type i1)
Strain Pectobacterium atrosepticum SCRI1043
Replicon chromosome
Sequence Protein sequence (168 a.a.); Nucleotide sequence (504 bp)
Reference
[1] Mattinen L, Somervuo P, Nykyri J, et al. Microarray profiling of host-extract-induced genes and characterization of the type VI secretion cluster in the potato pathogen Pectobacterium atrosepticum. Microbiology (Reading). 2008 Aug;154(Pt 8):2387-2396. doi: 10.1099/mic.0.2008/017582-0. PMID: 18667571
[2] Mattinen L, Nissinen R, Riipi T, et al. Host-extract induced changes in the secretome of the plant pathogenic bacterium Pectobacterium atrosepticum. Proteomics. 2007 Oct;7(19):3527-37. PMID: 17726675
[3] Liu H, Coulthurst SJ, Pritchard L, et al. Quorum sensing coordinates brute force and stealth modes of infection in the plant pathogen Pectobacterium atrosepticum. PLoS Pathog. 2008 Jun 20;4(6):e1000093. doi: 10.1371/journal.ppat.1000093. PMID: 18566662
[4] 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
[5] Bernard CS, Brunet YR, Gavioli M, et al. Regulation of type VI secretion gene clusters by sigma54 and cognate enhancer binding proteins. J Bacteriol. 2011 May;193(9):2158-67. doi: 10.1128/JB.00029-11. Epub 2011 Mar 4. PMID: 21378190
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene) ECA_RS16990
Coordinate (Strand) 3863466..3863969 (-)
NCBI ID WP_011094953.1
RefSeq NC_004547
Uniprot ID A0A0J5XLY8_9GAMM, Q6D1K1_PECAS
KEGG ID eca:ECA3445
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS_VipA PF05591.14 2.5e-54 9..160
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-167 MAKGTDGASVAPKERINIKYVPATGGQQAEIELPLTLMIVGNMKGRTEETPIEERQTVSIDKNNFTSVMKEANLELNFSVPNRLEEESQDDLPVKLSIGGLNDFSPDRIAQQVPELRKLLDLREALVALKGPLGNIPSFRNRLQDLLSSEEAREQLLKELELVKPAE


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 0.9885 - -


  Protein sequence: 168 a.a.    

>T6CP000333 NC_004547:c3863969-3863466 [Pectobacterium atrosepticum SCRI1043] [TssB]
MAKGTDGASVAPKERINIKYVPATGGQQAEIELPLTLMIVGNMKGRTEETPIEERQTVSIDKNNFTSVMKEANLELNFSV
PNRLEEESQDDLPVKLSIGGLNDFSPDRIAQQVPELRKLLDLREALVALKGPLGNIPSFRNRLQDLLSSEEAREQLLKEL
ELVKPAE*

  Nucleotide sequence: 504 bp    

>T6CP000333 NC_004547:c3863969-3863466 [Pectobacterium atrosepticum SCRI1043] [TssB]
ATGGCAAAAGGAACTGATGGTGCATCTGTCGCACCAAAGGAACGTATTAATATCAAATATGTTCCGGCCACTGGTGGTCA
GCAGGCGGAAATAGAATTGCCGTTAACGCTGATGATCGTGGGAAATATGAAAGGGCGCACAGAGGAAACGCCGATCGAGG
AACGTCAGACCGTATCGATCGATAAAAACAATTTTACCTCCGTGATGAAAGAAGCAAATCTGGAACTGAATTTCAGTGTG
CCAAATCGCCTTGAAGAAGAAAGTCAGGACGACCTGCCAGTGAAATTGAGCATCGGCGGTTTGAATGATTTCTCCCCTGA
CCGCATTGCCCAGCAAGTGCCTGAATTACGTAAGCTGCTTGATTTACGTGAGGCACTGGTCGCGCTGAAAGGCCCCCTCG
GCAATATTCCCTCATTCCGTAATCGTTTGCAGGATCTGTTGTCCAGCGAAGAAGCCAGAGAGCAGCTTTTAAAAGAGCTC
GAGCTGGTGAAACCCGCCGAATAA