1KQ2

Crystal Structure of an Hfq-RNA Complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.71 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.204 
  • R-Value Observed: 0.204 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structures of the pleiotropic translational regulator Hfq and an Hfq-RNA complex: a bacterial Sm-like protein.

Schumacher, M.A.Pearson, R.F.Moller, T.Valentin-Hansen, P.Brennan, R.G.

(2002) EMBO J 21: 3546-3556

  • DOI: 10.1093/emboj/cdf322
  • Primary Citation of Related Structures:  
    1KQ2, 1KQ1

  • PubMed Abstract: 
  • In prokaryotes, Hfq regulates translation by modulating the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences. To elucidate the mechanisms of target recognition and translation regulation by Hfq, we determined the crystal structures of the Staphylococcus aureus Hfq and an Hfq-RNA complex to 1 ...

    In prokaryotes, Hfq regulates translation by modulating the structure of numerous RNA molecules by binding preferentially to A/U-rich sequences. To elucidate the mechanisms of target recognition and translation regulation by Hfq, we determined the crystal structures of the Staphylococcus aureus Hfq and an Hfq-RNA complex to 1.55 and 2.71 A resolution, respectively. The structures reveal that Hfq possesses the Sm-fold previously observed only in eukaryotes and archaea. However, unlike these heptameric Sm proteins, Hfq forms a homo-hexameric ring. The Hfq-RNA structure reveals that the single-stranded hepta-oligoribonucleotide binds in a circular conformation around a central basic cleft, whereby Tyr42 residues from adjacent subunits stack with six of the bases, and Gln8, outside the Sm motif, provides key protein-base contacts. Such binding suggests a mechanism for Hfq function.


    Organizational Affiliation

    Department of Biochemistry and Molecular Biology, Oregon Health and Science University, Portland, OR 97201-3098, USA.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Host factor for Q beta ABHIKM77Staphylococcus aureusMutation(s): 0 
Find proteins for A0A0H3JV59 (Staphylococcus aureus (strain Mu50 / ATCC 700699))
Explore A0A0H3JV59 
Go to UniProtKB:  A0A0H3JV59
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    5'-R(*AP*UP*UP*UP*UP*UP*G)-3'R7N/A
    Small Molecules
    External Ligand Annotations 
    IDBinding Affinity (Sequence Identity %)
    RNAKd :  30.5   nM  PDBBind
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.71 Å
    • R-Value Free: 0.266 
    • R-Value Work: 0.204 
    • R-Value Observed: 0.204 
    • Space Group: C 2 2 21
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 80.87α = 90
    b = 115.6β = 90
    c = 101.84γ = 90
    Software Package:
    Software NamePurpose
    MOLREPphasing
    CNSrefinement
    MOSFLMdata reduction
    CCP4data scaling

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History  (Full details and data files)

    • Version 1.0: 2002-07-05
      Type: Initial release
    • Version 1.1: 2008-04-27
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance