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Hok/sok system

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The hok/sok system is a postsegregational killing mechanism employed by the R1 plasmid in Escherichia coli. It was the first type I toxin-antitoxin pair to be identified through characterisation of a plasmid-stabilising locus.[1] It is a type I system because the toxin is neutralised by a complementary RNA, rather than a partnered protein (type II toxin-antitoxin).[2]

The conserved secondary structure of sok non-coding RNA transcript which binds with hok mRNA.

Genes involved

The hok/sok system involves three genes:[3]

  • hok, host killing - a long lived (half-life 20 minutes) toxin
  • sok, suppression of killing - a short lived (half-life 30 seconds) RNA antitoxin
  • mok, modulation of killing - required for hok translation[4]
HOK
Identifiers
SymbolHOK
PfamPF01848
InterProIPR000021
PROSITEPDOC00481
Available protein structures:
Pfam  structures / ECOD  
PDBRCSB PDB; PDBe; PDBj
PDBsumstructure summary

Killing mechanism

When E. coli undergoes cell division, the two daughter cells inherit the long-lived hok toxin from the parent cell. Due to the short half-life of the sok antitoxin, daughter cells inherit only small amounts and it quickly degrades.[3]

If a daughter cell has inherited the R1 plasmid, it has inherited the sok gene and a strong promoter which brings about high levels of transcription. So much so that in an R1-positive cell, Sok transcript exists in considerable molar excess over Hok mRNA.[5] Sok RNA then indirectly inhibits the translation of hok by inhibiting mok translation. There is a complementary region where sok transcript binds hok mRNA directly (pictured), but it does not occlude the Shine-Dalgarno sequence. Instead, sok RNA regulates the translation of the mok open reading frame, which nearly entirely overlaps that of hok. It is this translation-coupling which effectively allows sok RNA to repress the translation of hok mRNA.[6]

The sok transcript forms a duplex with the leader region of hok mRNA and this is recognized by RNase III and degraded. The cleavage products are very unstable and soon decay.[7]

Daughter cells without a copy of the R1 plasmid die because they do not have the means to produce more sok antitoxin transcript to inhibit translation of the inherited hok mRNA. The killing system is said to be postsegregational (PSK),[8] since cell death occurs after segregation of the plasmid.[9][10]

Hok toxin

The hok gene codes for a 52 amino acid toxic protein which causes cell death by depolarization of the cell membrane.[11][12] It works in a similar way to holin proteins which are produced by bacteriophages before cell lysis.[2][13]

Homologous systems

Further information: Toxin-antitoxin system

Other plasmids

hok/sok homologues denoted flmA/B (FlmA is the protein toxin and FlmB RNA the antisense regulator)[14] are carried on the F plasmid which operate in the same way to maintain the stability of the plasmid.[15] The F plasmid contains another homologous toxin-antitoxin system called srnB.[11]

The first type I toxin-antitoxin system to be found in gram-positive bacteria is the RNAI-RNAII system of the pAD1 plasmid in Enterococcus faecalis. Here, RNAI encodes a toxic protein Fst while RNAII is the regulatory sRNA.[16]

Chromosomal toxin-antitoxin systems

In E. coli strain K-12 there are four long direct repeats (ldr) which encode short open reading frames of 35 codons organised in a homologous manner to the hok/sok system. One of the repeats encodes LdrD, a toxic protein which causes cell death. An unstable antisense RNA regulator (Rd1D) blocks the translation of the LdrD transcript.[17] A mok homologue which overlaps each ldr loci has also been found.[3]

IstR RNA works in a similar system in conjunction with the toxic TisB protein.[18]

See also

References

  1. ^ Gerdes K, Larsen JE, Molin S (1985). "Stable inheritance of plasmid R1 requires two different loci". J. Bacteriol. 161 (1): 292–8. PMC 214870. PMID 2981804. Retrieved 2010-08-10. {{cite journal}}: Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
  2. ^ a b Hayes F (2003). "Toxins-antitoxins: plasmid maintenance, programmed cell death, and cell cycle arrest". Science. 301 (5639): 1496–9. doi:10.1126/science.1088157. PMID 12970556. Retrieved 2010-08-10. {{cite journal}}: Unknown parameter |month= ignored (help)
  3. ^ a b c Gerdes K, Wagner EG (2007). "RNA antitoxins". Curr. Opin. Microbiol. 10 (2): 117–24. doi:10.1016/j.mib.2007.03.003. PMID 17376733. Retrieved 2010-08-10. {{cite journal}}: Unknown parameter |month= ignored (help)
  4. ^ Faridani OR, Nikravesh A, Pandey DP, Gerdes K, Good L (2006). "Competitive inhibition of natural antisense Sok-RNA interactions activates Hok-mediated cell killing in Escherichia coli". Nucleic Acids Res. 34 (20): 5915–22. doi:10.1093/nar/gkl750. PMC 1635323. PMID 17065468. Retrieved 2010-08-09.{{cite journal}}: CS1 maint: multiple names: authors list (link)
  5. ^ Gerdes K, Thisted T, Martinussen J (1990). "Mechanism of post-segregational killing by the hok/sok system of plasmid R1: sok antisense RNA regulates formation of a hok mRNA species correlated with killing of plasmid-free cells". Mol. Microbiol. 4 (11): 1807–18. doi:10.1111/j.1365-2958.1990.tb02029.x. PMID 1707122. {{cite journal}}: |access-date= requires |url= (help); Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
  6. ^ Thisted T, Gerdes K (1992). "Mechanism of post-segregational killing by the hok/sok system of plasmid R1. Sok antisense RNA regulates hok gene expression indirectly through the overlapping mok gene". J. Mol. Biol. 223 (1): 41–54. doi:10.1016/0022-2836(92)90714-U. PMID 1370544. Retrieved 2010-08-10. {{cite journal}}: Unknown parameter |month= ignored (help)
  7. ^ Gerdes K, Nielsen A, Thorsted P, Wagner EG (1992). "Mechanism of killer gene activation. Antisense RNA-dependent RNase III cleavage ensures rapid turn-over of the stable hok, srnB and pndA effector messenger RNAs". J. Mol. Biol. 226 (3): 637–49. doi:10.1016/0022-2836(92)90621-P. PMID 1380562. Retrieved 2010-08-10. {{cite journal}}: Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
  8. ^ Gerdes K, Rasmussen PB, Molin S (1986). "Unique type of plasmid maintenance function: postsegregational killing of plasmid-free cells". Proc. Natl. Acad. Sci. U.S.A. 83 (10): 3116–20. doi:10.1073/pnas.83.10.3116. PMC 323463. PMID 3517851. Retrieved 2010-08-10. {{cite journal}}: Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
  9. ^ Thisted T, Sørensen NS, Gerdes K (1995). "Mechanism of post-segregational killing: secondary structure analysis of the entire Hok mRNA from plasmid R1 suggests a fold-back structure that prevents translation and antisense RNA binding". J. Mol. Biol. 247 (5): 859–73. doi:10.1006/jmbi.1995.0186. PMID 7536849.{{cite journal}}: CS1 maint: multiple names: authors list (link)
  10. ^ Gerdes K, Bech FW, Jørgensen ST; et al. (1986). "Mechanism of postsegregational killing by the hok gene product of the parB system of plasmid R1 and its homology with the relF gene product of the E. coli relB operon". EMBO J. 5 (8): 2023–9. PMC 1167073. PMID 3019679. {{cite journal}}: |access-date= requires |url= (help); Explicit use of et al. in: |author= (help); Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
  11. ^ a b Gerdes K, Poulsen LK, Thisted T, Nielsen AK, Martinussen J, Andreasen PH (1990). "The hok killer gene family in gram-negative bacteria". New Biol. 2 (11): 946–56. PMID 2101633. {{cite journal}}: |access-date= requires |url= (help); Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
  12. ^ Pecota DC, Osapay G, Selsted ME, Wood TK (2003). "Antimicrobial properties of the Escherichia coli R1 plasmid host killing peptide". J. Biotechnol. 100 (1): 1–12. doi:10.1016/S0168-1656(02)00240-7. PMID 12413781.{{cite journal}}: CS1 maint: multiple names: authors list (link)
  13. ^ Wang IN, Smith DL, Young R (2000). "Holins: the protein clocks of bacteriophage infections". Annu. Rev. Microbiol. 54: 799–825. doi:10.1146/annurev.micro.54.1.799. PMID 11018145. Retrieved 2010-08-19.{{cite journal}}: CS1 maint: multiple names: authors list (link)
  14. ^ Loh SM, Cram DS, Skurray RA (1988). "Nucleotide sequence and transcriptional analysis of a third function (Flm) involved in F-plasmid maintenance". Gene. 66 (2): 259–68. doi:10.1016/0378-1119(88)90362-9. PMID 3049248. {{cite journal}}: |access-date= requires |url= (help); Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
  15. ^ Pedersen K, Gerdes K (1999). "Multiple hok genes on the chromosome of Escherichia coli". Mol. Microbiol. 32 (5): 1090–102. doi:10.1046/j.1365-2958.1999.01431.x. PMID 10361310. Retrieved 2010-08-09. {{cite journal}}: Unknown parameter |month= ignored (help)
  16. ^ Greenfield TJ, Ehli E, Kirshenmann T, Franch T, Gerdes K, Weaver KE (2000). "The antisense RNA of the par locus of pAD1 regulates the expression of a 33-amino-acid toxic peptide by an unusual mechanism". Mol. Microbiol. 37 (3): 652–60. doi:10.1046/j.1365-2958.2000.02035.x. PMID 10931358. Retrieved 2010-08-10. {{cite journal}}: Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
  17. ^ Kawano M, Oshima T, Kasai H, Mori H (2002). "Molecular characterization of long direct repeat (LDR) sequences expressing a stable mRNA encoding for a 35-amino-acid cell-killing peptide and a cis-encoded small antisense RNA in Escherichia coli". Mol. Microbiol. 45 (2): 333–49. doi:10.1046/j.1365-2958.2002.03042.x. PMID 12123448. Retrieved 2010-08-10. {{cite journal}}: Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)
  18. ^ Darfeuille F, Unoson C, Vogel J, Wagner EG (2007). "An antisense RNA inhibits translation by competing with standby ribosomes". Mol. Cell. 26 (3): 381–92. doi:10.1016/j.molcel.2007.04.003. PMID 17499044. Retrieved 2010-08-11. {{cite journal}}: Unknown parameter |month= ignored (help)CS1 maint: multiple names: authors list (link)

Further reading

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