Detailed information of component protein


Summary

Component ID T6CP000282
Component protein type TssD
T6SS ID (Type) T6SS00035 experimental (Type i3)
Strain Pseudomonas protegens Pf-5
Replicon chromosome
Sequence Protein sequence (163 a.a.); Nucleotide sequence (489 bp)
Reference
[1] Loper JE, Hassan KA, Mavrodi DV, et al. Comparative genomics of plant-associated Pseudomonas spp.: insights into diversity and inheritance of traits involved in multitrophic interactions. PLoS Genet. 2012 Jul;8(7):e1002784. doi: 10.1371/journal.pgen.1002784. Epub 2012 Jul 5. PMID: 22792073
[2] Russell AB, Singh P, Brittnacher M, et al. A widespread bacterial type VI secretion effector superfamily identified using a heuristic approach. Cell Host Microbe. 2012 May 17;11(5):538-49. doi: 10.1016/j.chom.2012.04.007. PMID: 22607806
[3] Hassan KA, Johnson A, Shaffer BT, et al. Inactivation of the GacA response regulator in Pseudomonas fluorescens Pf-5 has far-reaching transcriptomic consequences. Environ Microbiol. 2010 Apr;12(4):899-915. doi: 10.1111/j.1462-2920.2009.02134.x. Epub 2010 Jan 18. PMID: 20089046
[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
[5] Whitney JC, Chou S, Russell AB, et al. Identification, structure, and function of a novel type VI secretion peptidoglycan glycoside hydrolase effector-immunity pair. J Biol Chem. 2013 Sep 13;288(37):26616-24. doi: 10.1074/jbc.M113.488320. Epub 2013 Jul 22. PMID: 23878199
experimental Experimental investigation has been performed on this T6SS
External database links

Locus tag (Gene) PFL_RS30865
Coordinate (Strand) 6916187..6916675 (+)
NCBI ID WP_011064257.1
RefSeq NC_004129
Uniprot ID A0A2C9EVR8_PSEPH, A0A0D6BS68_9PSED, A0A1K2AA95_9PSED, A0A2T0Z783_9PSED, A0A365W397_9PSED, Q4K3N6_PSEF5, A0A7Y9VBQ3_9PSED, A0A7Y1CEL3_9PSED, A0A7U9LBB1_PSEFL, A0A2K2WMX1_9PSED, A0A7V8J9W7_9PSED
KEGG ID pfl:PFL_6089, pprc:PFLCHA0_c60480, psos:POS17_6046
PDB ID -
Pfam domain hit(s)

Domain Pfam ID E-value Aligned region
T6SS_HCP PF05638.14 1.7e-42 6..136
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-162 MAVDIFIKIGDIKGESMDKAHKDEIDVLNWSWGMSQSGNMHVGGGGGAGKVNIQDLSLTKYVDKASPNLMMHCSSGKHIDKVRLTVRKAGGESQVEYMIIDLEEVLITSLSTGGSGSDDRLTENITLNFAQVMVEYQPQKADGTKDGGPIKYGWNIRSNTKR


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 0.9768 - -


  Protein sequence: 163 a.a.    

>T6CP000282 NC_004129:6916187-6916675 [Pseudomonas protegens Pf-5] [TssD]
MAVDIFIKIGDIKGESMDKAHKDEIDVLNWSWGMSQSGNMHVGGGGGAGKVNIQDLSLTKYVDKASPNLMMHCSSGKHID
KVRLTVRKAGGESQVEYMIIDLEEVLITSLSTGGSGSDDRLTENITLNFAQVMVEYQPQKADGTKDGGPIKYGWNIRSNT
KR*

  Nucleotide sequence: 489 bp    

>T6CP000282 NC_004129:6916187-6916675 [Pseudomonas protegens Pf-5] [TssD]
ATGGCTGTTGATATTTTCATCAAGATCGGTGACATCAAGGGCGAGTCCATGGACAAAGCCCACAAGGACGAAATCGACGT
GTTGAACTGGAGCTGGGGCATGTCCCAGTCCGGCAACATGCACGTTGGCGGTGGCGGCGGCGCGGGCAAGGTGAACATCC
AGGACCTGTCGCTGACCAAGTACGTGGACAAGGCATCGCCGAACCTGATGATGCATTGCTCCAGCGGCAAGCACATCGAC
AAGGTGCGCCTGACCGTGCGCAAGGCCGGCGGCGAAAGCCAGGTCGAGTACATGATCATCGACCTGGAAGAAGTGCTGAT
CACTTCCCTGAGCACCGGCGGTTCGGGCAGCGATGACCGCCTGACCGAAAACATCACCCTGAACTTCGCTCAGGTGATGG
TCGAGTACCAGCCGCAGAAAGCCGACGGCACCAAGGACGGCGGCCCGATCAAGTACGGCTGGAACATCCGCTCCAACACC
AAGCGCTGA