SMC Complexes pp 169-180 | Cite as

Dissecting DNA Compaction by the Bacterial Condensin MukB

  • Rupesh Kumar
  • Soon Bahng
  • Kenneth J. MariansEmail author
Part of the Methods in Molecular Biology book series (MIMB, volume 2004)


Condensins in bacteria are one of the most important factors involved in the organization of long threads of DNA into compact chromosomes. The organization of DNA by condensins is vital to many DNA transactions including DNA repair and chromosome segregation. Although some of the activities of condensins are well studied, the mechanism of the overall process executed by condensins, DNA compaction, remains unclear. Here, we describe some of the methods used routinely in our laboratory to understand the mechanism of DNA compaction by Escherichia coli condensin MukB.

Key words

MukB Condensins SMC Chromatin DNA condensation DNA looping DNA bridging DNA supercoiling 


  1. 1.
    Uhlmann F (2016) SMC complexes: from DNA to chromosomes. Nat Rev Mol Cell Biol 17:399–412CrossRefGoogle Scholar
  2. 2.
    Hirano T (2016) Condensin-based chromosome organization from bacteria to vertebrates. Cell 164:847–857CrossRefGoogle Scholar
  3. 3.
    Wells JN, Gligoris TG, Nasmyth KA, Marsh JA (2017) Evolution of condensin and cohesin complexes driven by replacement of Kite by Hawk proteins. Curr Biol 27:R17–R18CrossRefGoogle Scholar
  4. 4.
    Niki H, Jaffe A, Imamura R, Ogura T, Hiraga S (1991) The new gene mukB codes for a 177 kd protein with coiled-coil domains involved in chromosome partitioning of E. coli. EMBO J 10:183–193CrossRefGoogle Scholar
  5. 5.
    Yamanaka K, Ogura T, Niki H, Hiraga S (1996) Identification of two new genes, mukE and mukF, involved in chromosome partitioning in Escherichia coli. Mol Gen Genet 250:241–251PubMedGoogle Scholar
  6. 6.
    Petrushenko ZM, Cui Y, She W, Rybenkov VV (2010) Mechanics of DNA bridging by bacterial condensin MukBEF in vitro and in singulo. EMBO J 29:1126–1135CrossRefGoogle Scholar
  7. 7.
    Petrushenko ZM, Lai CH, Rybenkov VV (2006) Antagonistic interactions of kleisins and DNA with bacterial Condensin MukB. J Biol Chem 281:34208–34217CrossRefGoogle Scholar
  8. 8.
    Bahng S, Hayama R, Marians KJ (2016) MukB-mediated catenation of DNA is ATP and MukEF independent. J Biol Chem 291:23999–24008CrossRefGoogle Scholar
  9. 9.
    Zawadzka K, Zawadzki P, Baker R, Rajasekar KV, Wagner F, Sherratt DJ, Arciszewska LK (2018) MukB ATPases are regulated independently by the N- and C-terminal domains of MukF kleisin. elife 7:e31522CrossRefGoogle Scholar
  10. 10.
    Kumar R, Grosbart M, Nurse P, Bahng S, Wyman CL, Marians KJ (2017) The bacterial condensin MukB compacts DNA by sequestering supercoils and stabilizing topologically isolated loops. J Biol Chem 292:16904–16920CrossRefGoogle Scholar
  11. 11.
    Hayama R, Marians KJ (2010) Physical and functional interaction between the condensin MukB and the decatenase topoisomerase IV in Escherichia coli. Proc Natl Acad Sci U S A 107:18826–18831CrossRefGoogle Scholar
  12. 12.
    Mizuuchi K, Mizuuchi M, O’Dea MH, Gellert M (1984) Cloning and simplified purification of Escherichia coli DNA gyrase A and B proteins. J Biol Chem 259:9199–9201PubMedGoogle Scholar
  13. 13.
    Hiasa H, DiGate RJ, Marians KJ (1994) Decatenating activity of Escherichia coli DNA gyrase and topoisomerases I and III during oriC and pBR322 DNA replication in vitro. J Biol Chem 269:2093–2099PubMedGoogle Scholar

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© Springer Science+Business Media, LLC, part of Springer Nature 2019

Authors and Affiliations

  1. 1.Molecular Biology ProgramMemorial Sloan Kettering Cancer CenterNew YorkUSA

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