Structure of RacA-DNA complex; P21 form

Experimental Data Snapshot

  • Resolution: 2.62 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.239 

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Molecular insights into DNA binding and anchoring by the Bacillus subtilis sporulation kinetochore-like RacA protein.

Schumacher, M.A.Lee, J.Zeng, W.

(2016) Nucleic Acids Res 44: 5438-5449

  • DOI: https://doi.org/10.1093/nar/gkw248
  • Primary Citation of Related Structures:  
    5I41, 5I44

  • PubMed Abstract: 

    During Bacillus subtilis sporulation, segregating sister chromosomes are anchored to cell poles and the chromosome is remodeled into an elongated structure called the axial filament. Data indicate that a developmentally regulated protein called RacA is involved in these functions. To gain insight into how RacA performs these diverse processes we performed a battery of structural and biochemical analyses. These studies show that RacA contains an N-terminal winged-helix-turn-helix module connected by a disordered region to a predicted coiled-coil domain. Structures capture RacA binding the DNA using distinct protein-protein interfaces and employing adjustable DNA docking modes. This unique DNA binding mechanism indicates how RacA can both specifically recognize its GC-rich centromere and also non-specifically bind the DNA. Adjacent RacA molecules within the protein-DNA structure interact leading to DNA compaction, suggesting a mechanism for axial filament formation. We also show that the RacA C-domain coiled coil directly contacts the coiled coil region of the polar protein DivIVA, which anchors RacA and hence the chromosome to the pole. Thus, our combined data reveal unique DNA binding properties by RacA and provide insight into the DNA remodeling and polar anchorage functions of the protein.

  • Organizational Affiliation

    Department of Biochemistry, Duke University School of Medicine, 255 Nanaline H. Duke, Durham, NC 27710, USA maria.schumacher@duke.edu.


Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Chromosome-anchoring protein RacA69Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
Gene Names: racAywkCBSU37030
Find proteins for P45870 (Bacillus subtilis (strain 168))
Explore P45870 
Go to UniProtKB:  P45870
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP45870
Sequence Annotations
  • Reference Sequence

Find similar nucleic acids by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains LengthOrganismImage
DNA (5'-D(*TP*GP*AP*CP*GP*CP*CP*GP*GP*CP*GP*TP*CP*A)-3')14synthetic construct
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.62 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.239 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 56.6α = 90
b = 68.5β = 97.5
c = 117.4γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
RESOLVEmodel building
PDB_EXTRACTdata extraction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-05-04
    Type: Initial release
  • Version 1.1: 2016-06-29
    Changes: Database references