Detailed information of component protein


Summary

Component ID T6CP008453
Component protein type TssD
T6SS ID (Type) T6SS00040 experimental (Type i1)
Strain Pectobacterium atrosepticum SCRI1043
Replicon chromosome
Sequence Protein sequence (173 a.a.); Nucleotide sequence (519 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_RS16905
Coordinate (Strand) 3841279..3841797 (-)
NCBI ID WP_011094937.1
RefSeq NC_004547
Uniprot ID Q6D1L7_PECAS
KEGG ID eca:ECA3428
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS_HCP PF05638.14 6.6e-32 7..155
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-172 MPTPCYISIEGKTQGNITAGAFTSDSVGNIYVEGHEDEMLVQEFKHVVTVPTDPQSGQPSGQRVHKPFKFTVALNKAVPLLYNALSTGEMLPTTTLKWYRTSVEGKQEHFFSTILTDATIVDIDCKMPHCQDPSKLDYTQLIEVSLAYRKIDWEHTVAGTSGSDDWRTPVEA


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 0.9705 - -


  Protein sequence: 173 a.a.    

>T6CP008453 NC_004547:c3841797-3841279 [Pectobacterium atrosepticum SCRI1043] [TssD]
MPTPCYISIEGKTQGNITAGAFTSDSVGNIYVEGHEDEMLVQEFKHVVTVPTDPQSGQPSGQRVHKPFKFTVALNKAVPL
LYNALSTGEMLPTTTLKWYRTSVEGKQEHFFSTILTDATIVDIDCKMPHCQDPSKLDYTQLIEVSLAYRKIDWEHTVAGT
SGSDDWRTPVEA*

  Nucleotide sequence: 519 bp    

>T6CP008453 NC_004547:c3841797-3841279 [Pectobacterium atrosepticum SCRI1043] [TssD]
ATGCCAACTCCATGCTATATCAGCATCGAAGGGAAAACTCAGGGCAACATCACCGCCGGTGCCTTCACGTCTGATTCTGT
CGGCAACATCTATGTCGAAGGCCACGAAGACGAAATGCTGGTGCAGGAATTCAAACACGTGGTTACCGTGCCGACCGACC
CGCAGTCTGGTCAGCCGTCCGGCCAACGCGTGCACAAGCCGTTTAAATTCACCGTCGCGCTGAACAAAGCTGTTCCACTG
CTGTACAACGCACTGTCTACCGGTGAAATGCTGCCAACTACGACCCTGAAGTGGTATCGCACCTCGGTGGAAGGCAAGCA
GGAGCACTTCTTCTCTACCATCCTTACCGATGCCACCATCGTGGATATCGACTGCAAAATGCCACACTGCCAGGACCCGT
CCAAACTGGATTACACCCAACTGATTGAAGTGTCGCTGGCTTACCGCAAAATCGACTGGGAACACACGGTTGCAGGGACT
TCTGGCTCTGATGACTGGCGTACGCCGGTCGAAGCGTAA