4YO2

Structure of E2F8, an atypical member of E2F family of transcription factors


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.07 Å
  • R-Value Free: 0.297 
  • R-Value Work: 0.272 
  • R-Value Observed: 0.272 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural insights into the DNA-binding specificity of E2F family transcription factors.

Morgunova, E.Yin, Y.Jolma, A.Dave, K.Schmierer, B.Popov, A.Eremina, N.Nilsson, L.Taipale, J.

(2015) Nat Commun 6: 10050-10050

  • DOI: 10.1038/ncomms10050
  • Primary Citation of Related Structures:  
    4YO2

  • PubMed Abstract: 
  • The mammalian cell cycle is controlled by the E2F family of transcription factors. Typical E2Fs bind to DNA as heterodimers with the related dimerization partner (DP) proteins, whereas the atypical E2Fs, E2F7 and E2F8 contain two DNA-binding domains ...

    The mammalian cell cycle is controlled by the E2F family of transcription factors. Typical E2Fs bind to DNA as heterodimers with the related dimerization partner (DP) proteins, whereas the atypical E2Fs, E2F7 and E2F8 contain two DNA-binding domains (DBDs) and act as repressors. To understand the mechanism of repression, we have resolved the structure of E2F8 in complex with DNA at atomic resolution. We find that the first and second DBDs of E2F8 resemble the DBDs of typical E2F and DP proteins, respectively. Using molecular dynamics simulations, biochemical affinity measurements and chromatin immunoprecipitation, we further show that both atypical and typical E2Fs bind to similar DNA sequences in vitro and in vivo. Our results represent the first crystal structure of an E2F protein with two DBDs, and reveal the mechanism by which atypical E2Fs can repress canonical E2F target genes and exert their negative influence on cell cycle progression.


    Organizational Affiliation

    Genome-Scale Biology Research Program, Faculty of Medicine, University of Helsinki, PO Box 63, FI-00014 Helsinki, Finland.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Transcription factor E2F8A232Homo sapiensMutation(s): 0 
Gene Names: E2F8
Find proteins for A0AVK6 (Homo sapiens)
Explore A0AVK6 
Go to UniProtKB:  A0AVK6
NIH Common Fund Data Resources
PHAROS  A0AVK6
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(P*TP*TP*TP*TP*CP*CP*CP*GP*CP*CP*AP*AP*AP*AP*A)-3')C15Homo sapiens
    • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 3
      MoleculeChainsLengthOrganismImage
      DNA (5'-D(P*TP*TP*TP*TP*TP*GP*GP*CP*GP*GP*GP*AP*AP*AP*A)-3')D15Homo sapiens
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 3.07 Å
      • R-Value Free: 0.297 
      • R-Value Work: 0.272 
      • R-Value Observed: 0.272 
      • Space Group: P 32 2 1
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 98.83α = 90
      b = 98.83β = 90
      c = 121.69γ = 120
      Software Package:
      Software NamePurpose
      PHASERphasing
      PHENIXrefinement
      XSCALEdata scaling
      Cootmodel building
      XDSdata reduction

      Structure Validation

      View Full Validation Report



      Entry History 

      Deposition Data

      Revision History 

      • Version 1.0: 2015-12-09
        Type: Initial release
      • Version 1.1: 2015-12-16
        Changes: Database references