5I44

Structure of RacA-DNA complex; P21 form


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.62 Å
  • R-Value Free: 0.269 
  • R-Value Work: 0.239 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

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: 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 ...

    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.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Chromosome-anchoring protein RacAABDEFGHIJK69Bacillus subtilis subsp. subtilis str. 168Mutation(s): 0 
Gene Names: racAywkCBSU37030
Find proteins for P45870 (Bacillus subtilis (strain 168))
Explore P45870 
Go to UniProtKB:  P45870
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*TP*GP*AP*CP*GP*CP*CP*GP*GP*CP*GP*TP*CP*A)-3')P, R, T, U, W, Z14synthetic construct
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • 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
    SOLVEphasing
    RESOLVEmodel building
    CNSrefinement
    PDB_EXTRACTdata extraction

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    • Deposited Date: 2016-02-11 
    • Released Date: 2016-05-04 
    • Deposition Author(s): Schumacher, M.A.

    Revision History 

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