5K58

Structure of the K. pneumonia SlmA-DNA complex bound to the C-terminal of the cell division protein FtsZ


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.77 Å
  • R-Value Free: 0.268 
  • R-Value Work: 0.247 
  • R-Value Observed: 0.245 

wwPDB Validation   3D Report Full Report


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Literature

Structures of the nucleoid occlusion protein SlmA bound to DNA and the C-terminal domain of the cytoskeletal protein FtsZ.

Schumacher, M.A.Zeng, W.

(2016) Proc Natl Acad Sci U S A 113: 4988-4993

  • DOI: 10.1073/pnas.1602327113
  • Primary Citation of Related Structures:  
    5K58, 5HSZ, 5HAW, 5HBU

  • PubMed Abstract: 
  • Cell division in most prokaryotes is mediated by FtsZ, which polymerizes to create the cytokinetic Z ring. Multiple FtsZ-binding proteins regulate FtsZ polymerization to ensure the proper spatiotemporal formation of the Z ring at the division site. The DNA-binding protein SlmA binds to FtsZ and prevents Z-ring formation through the nucleoid in a process called "nucleoid occlusion" (NO) ...

    Cell division in most prokaryotes is mediated by FtsZ, which polymerizes to create the cytokinetic Z ring. Multiple FtsZ-binding proteins regulate FtsZ polymerization to ensure the proper spatiotemporal formation of the Z ring at the division site. The DNA-binding protein SlmA binds to FtsZ and prevents Z-ring formation through the nucleoid in a process called "nucleoid occlusion" (NO). As do most FtsZ-accessory proteins, SlmA interacts with the conserved C-terminal domain (CTD) that is connected to the FtsZ core by a long, flexible linker. However, SlmA is distinct from other regulatory factors in that it must be DNA-bound to interact with the FtsZ CTD. Few structures of FtsZ regulator-CTD complexes are available, but all reveal the CTD bound as a helix. To deduce the molecular basis for the unique SlmA-DNA-FtsZ CTD regulatory interaction and provide insight into FtsZ-regulator protein complex formation, we determined structures of Escherichia coli, Vibrio cholera, and Klebsiella pneumonia SlmA-DNA-FtsZ CTD ternary complexes. Strikingly, the FtsZ CTD does not interact with SlmA as a helix but binds as an extended conformation in a narrow, surface-exposed pocket formed only in the DNA-bound state of SlmA and located at the junction between the DNA-binding and C-terminal dimer domains. Binding studies are consistent with the structure and underscore key interactions in complex formation. Combined, these data reveal the molecular basis for the SlmA-DNA-FtsZ interaction with implications for SlmA's NO function and underscore the ability of the FtsZ CTD to adopt a wide range of conformations, explaining its ability to bind diverse regulatory proteins.


    Organizational Affiliation

    Department of Biochemistry, Duke University School of Medicine, Durham, NC 27710.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Nucleoid occlusion factor SlmAC [auth A], D [auth B], A [auth E], B [auth F]190Escherichia coli O139:H28 str. E24377AMutation(s): 1 
Gene Names: slmAEcE24377A_4142
UniProt
Find proteins for P0C093 (Escherichia coli (strain K12))
Explore P0C093 
Go to UniProtKB:  P0C093
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
OctapeptideH [auth K], G [auth L], J [auth M], I [auth N]8synthetic constructMutation(s): 0 
UniProt
Find proteins for P0A9A6 (Escherichia coli (strain K12))
Explore P0A9A6 
Go to UniProtKB:  P0A9A6
Protein Feature View
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  • Reference Sequence
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  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*GP*TP*GP*AP*GP*TP*AP*CP*TP*CP*AP*C)-3')E [auth R], F [auth T]12synthetic construct
    Protein Feature View
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    • Reference Sequence
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.77 Å
    • R-Value Free: 0.268 
    • R-Value Work: 0.247 
    • R-Value Observed: 0.245 
    • Space Group: P 32
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 84.8α = 90
    b = 84.8β = 90
    c = 161.6γ = 120
    Software Package:
    Software NamePurpose
    MOSFLMdata reduction
    SCALAdata scaling
    MOLREPphasing
    PHENIXrefinement
    PDB_EXTRACTdata extraction

    Structure Validation

    View Full Validation Report




    Entry History 

    Deposition Data

    • Deposited Date: 2016-05-23 
    • Released Date: 2016-06-22 
    • Deposition Author(s): Schumacher, M.

    Revision History  (Full details and data files)

    • Version 1.0: 2016-06-22
      Type: Initial release