Detailed information of component protein


Summary

Component ID T6CP012955
Component protein type TssD
T6SS ID (Type) T6SS00929 experimental (Type i3)
Strain Serratia marcescens subsp. marcescens Db11
Replicon chromosome I
Sequence Protein sequence (161 a.a.); Nucleotide sequence (483 bp)
Reference
[1] Srikannathasan V, English G, Bui NK, et al. Structural basis for type VI secreted peptidoglycan DL-endopeptidase function, specificity and neutralization in Serratia marcescens. Acta Crystallogr D Biol Crystallogr. 2013 Dec;69(Pt 12):2468-82. doi: 10.1107/S0907444913022725. Epub 2013 Nov 19. PMID: 24311588
[2] Heymann JB, Bartho JD, Rybakova D, et al. Three-dimensional structure of the toxin-delivery particle antifeeding prophage of Serratia entomophila. J Biol Chem. 2013 Aug 30;288(35):25276-25284. doi: 10.1074/jbc.M113.456145. Epub 2013 Jul 15. PMID: 23857636
[3] Rao VA, Shepherd SM, English G, et al. The structure of Serratia marcescens Lip, a membrane-bound component of the type VI secretion system. Acta Crystallogr D Biol Crystallogr. 2011 Dec;67(Pt 12):1065-72. doi: 10.1107/S0907444911046300. Epub 2011 Nov 18. PMID: 22120744
[4] Murdoch SL, Trunk K, English G, et al. The opportunistic pathogen Serratia marcescens utilizes type VI secretion to target bacterial competitors. J Bacteriol. 2011 Nov;193(21):6057-69. doi: 10.1128/JB.05671-11. Epub 2011 Sep 2. PMID: 21890705
[5] Fritsch MJ, Trunk K, Diniz JA, et al. Proteomic identification of novel secreted antibacterial toxins of the Serratia marcescens type VI secretion system. Mol Cell Proteomics. 2013 Oct;12(10):2735-49. doi: 10.1074/mcp.M113.030502. Epub 2013 Jul 9. PMID: 23842002
[6] English G, Trunk K, Rao VA, et al. New secreted toxins and immunity proteins encoded within the Type VI secretion system gene cluster of Serratia marcescens. Mol Microbiol. 2012 Nov;86(4):921-36. doi: 10.1111/mmi.12028. Epub 2012 Sep 27. PMID: 22957938
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene) SMDB11_2263
Coordinate (Strand) 2386232..2386714 (+)
NCBI ID CDG12838.1
GenBank HG326223
Uniprot ID -
KEGG ID -
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS_HCP PF05638.14 3.4e-37 6..131
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-160 MAIDMFLKVEGASGESKDSNHKGWTDITSFSWGASQPGNMGVGGGGGAGKVCFNDLHVNALVDKSTPALLKHCSSGKHLTKVELSVCKAGGTQVEYVKITLDDVLVTAVQYTGAGGEDTVGVTYSFQAAKVKQQYWEQSDKGGKGAESSAGWNIKENREA


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 0.9102 - -


  Protein sequence: 161 a.a.    

>T6CP012955 HG326223:2386232-2386714 [Serratia marcescens subsp. marcescens Db11] [TssD]
MAIDMFLKVEGASGESKDSNHKGWTDITSFSWGASQPGNMGVGGGGGAGKVCFNDLHVNALVDKSTPALLKHCSSGKHLT
KVELSVCKAGGTQVEYVKITLDDVLVTAVQYTGAGGEDTVGVTYSFQAAKVKQQYWEQSDKGGKGAESSAGWNIKENREA
*

  Nucleotide sequence: 483 bp    

>T6CP012955 HG326223:2386232-2386714 [Serratia marcescens subsp. marcescens Db11] [TssD]
ATGGCTATTGATATGTTCCTGAAAGTTGAAGGTGCCAGCGGCGAATCCAAAGATTCGAATCACAAAGGCTGGACCGACAT
TACTTCTTTCTCCTGGGGCGCTTCTCAACCGGGCAATATGGGCGTTGGCGGCGGCGGTGGCGCCGGCAAAGTGTGCTTCA
ACGATCTGCACGTTAACGCGCTGGTCGACAAGTCAACCCCGGCGCTGCTGAAGCACTGCTCCAGCGGTAAGCACCTGACC
AAGGTTGAGTTGTCTGTCTGCAAGGCGGGCGGTACTCAGGTTGAGTACGTTAAAATCACCCTGGACGACGTGCTGGTCAC
CGCCGTGCAGTACACCGGCGCAGGCGGCGAAGACACCGTGGGCGTCACCTACTCCTTCCAGGCGGCGAAAGTGAAACAGC
AATACTGGGAGCAGAGCGACAAAGGCGGCAAAGGCGCCGAAAGCAGCGCAGGTTGGAACATCAAGGAAAACCGCGAAGCT
TAA