4MCE

Crystal structure of the Gas5 GRE Mimic


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.181 
  • R-Value Observed: 0.190 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Conserved sequence-specific lincRNA-steroid receptor interactions drive transcriptional repression and direct cell fate.

Hudson, W.H.Pickard, M.R.de Vera, I.M.Kuiper, E.G.Mourtada-Maarabouni, M.Conn, G.L.Kojetin, D.J.Williams, G.T.Ortlund, E.A.

(2014) Nat Commun 5: 5395-5395

  • DOI: 10.1038/ncomms6395
  • Primary Citation of Related Structures:  
    4MCE, 4MCF

  • PubMed Abstract: 
  • The majority of the eukaryotic genome is transcribed, generating a significant number of long intergenic noncoding RNAs (lincRNAs). Although lincRNAs represent the most poorly understood product of transcription, recent work has shown lincRNAs fulfill important cellular functions ...

    The majority of the eukaryotic genome is transcribed, generating a significant number of long intergenic noncoding RNAs (lincRNAs). Although lincRNAs represent the most poorly understood product of transcription, recent work has shown lincRNAs fulfill important cellular functions. In addition to low sequence conservation, poor understanding of structural mechanisms driving lincRNA biology hinders systematic prediction of their function. Here we report the molecular requirements for the recognition of steroid receptors (SRs) by the lincRNA growth arrest-specific 5 (Gas5), which regulates steroid-mediated transcriptional regulation, growth arrest and apoptosis. We identify the functional Gas5-SR interface and generate point mutations that ablate the SR-Gas5 lincRNA interaction, altering Gas5-driven apoptosis in cancer cell lines. Further, we find that the Gas5 SR-recognition sequence is conserved among haplorhines, with its evolutionary origin as a splice acceptor site. This study demonstrates that lincRNAs can recognize protein targets in a conserved, sequence-specific manner in order to affect critical cell functions.


    Organizational Affiliation

    1] Department of Biochemistry, Emory University School of Medicine, Atlanta, Georgia 30322, USA [2] Discovery and Developmental Therapeutics, Winship Cancer Institute, Atlanta, Georgia 30322, USA.



Macromolecules
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    Gas5 GREM FwdA, C10Homo sapiens
    Protein Feature View
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    • Reference Sequence
    • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 2
      MoleculeChainsLengthOrganismImage
      Gas5 GREM RevB, D11Homo sapiens
      Protein Feature View
      Expand
      • Reference Sequence
      Small Molecules
      Ligands 1 Unique
      IDChainsName / Formula / InChI Key2D Diagram3D Interactions
      SO4
      Query on SO4

      Download Ideal Coordinates CCD File 
      E [auth B], F [auth B], G [auth D]SULFATE ION
      O4 S
      QAOWNCQODCNURD-UHFFFAOYSA-L
       Ligand Interaction
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 2.21 Å
      • R-Value Free: 0.258 
      • R-Value Work: 0.181 
      • R-Value Observed: 0.190 
      • Space Group: H 3
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 43.485α = 90
      b = 43.485β = 90
      c = 173.188γ = 120
      Software Package:
      Software NamePurpose
      JDirectordata collection
      PHASERphasing
      PHENIXrefinement
      HKL-2000data reduction
      HKL-2000data scaling

      Structure Validation

      View Full Validation Report




      Entry History 

      Deposition Data

      Revision History  (Full details and data files)

      • Version 1.0: 2014-09-24
        Type: Initial release
      • Version 1.1: 2014-12-03
        Changes: Database references
      • Version 1.2: 2018-03-28
        Changes: Advisory, Data collection, Derived calculations, Source and taxonomy