2WTY

Crystal structure of the homodimeric MafB in complex with the T-MARE binding site


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.90 Å
  • R-Value Free: 0.275 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.237 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Design of a bZIP Transcription Factor with Homo/Heterodimer-Induced DNA-Binding Preference.

Pogenberg, V.Consani Textor, L.Vanhille, L.Holton, S.J.Sieweke, M.H.Wilmanns, M.

(2014) Structure 22: 466

  • DOI: 10.1016/j.str.2013.12.017
  • Primary Citation of Related Structures:  
    2WT7, 2WTY

  • PubMed Abstract: 
  • The ability of basic leucine zipper transcription factors for homo- or heterodimerization provides a paradigm for combinatorial control of eukaryotic gene expression. It has been unclear, however, how facultative dimerization results in alternative DNA-b ...

    The ability of basic leucine zipper transcription factors for homo- or heterodimerization provides a paradigm for combinatorial control of eukaryotic gene expression. It has been unclear, however, how facultative dimerization results in alternative DNA-binding repertoires on distinct regulatory elements. To unravel the molecular basis of such coupled preferences, we determined two high-resolution structures of the transcription factor MafB as a homodimer and as a heterodimer with c-Fos bound to variants of the Maf-recognition element. The structures revealed several unexpected and dimer-specific coiled-coil-heptad interactions. Based on these findings, we have engineered two MafB mutants with opposite dimerization preferences. One of them showed a strong preference for MafB/c-Fos heterodimerization and enabled selection of heterodimer-favoring over homodimer-specific Maf-recognition element variants. Our data provide a concept for transcription factor design to selectively activate dimer-specific pathways and binding repertoires.


    Organizational Affiliation

    EMBL Hamburg c/o DESY, Notkestraße 85, 22603 Hamburg, Germany. Electronic address: wilmanns@embl-hamburg.de.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
TRANSCRIPTION FACTOR MAFB AB97Mus musculusMutation(s): 2 
Gene Names: MafbKrmlMaf1
Find proteins for P54841 (Mus musculus)
Explore P54841 
Go to UniProtKB:  P54841
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 2
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*TP*AP*AP*TP*TP*GP*CP*TP*GP*AP*CP*TP*CP*AP *GP*CP*AP*AP*AP*T)-3')C20N/A
    • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 3
      MoleculeChainsLengthOrganismImage
      DNA (5'-D(*TP*AP*TP*TP*TP*GP*CP*TP*GP*AP*GP*TP*CP*AP *GP*CP*AP*AP*TP*T)-3')D20N/A
      Small Molecules
      Ligands 1 Unique
      IDChainsName / Formula / InChI Key2D Diagram3D Interactions
      MG
      Query on MG

      Download Ideal Coordinates CCD File 
      D
      MAGNESIUM ION
      Mg
      JLVVSXFLKOJNIY-UHFFFAOYSA-N
       Ligand Interaction
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 2.90 Å
      • R-Value Free: 0.275 
      • R-Value Work: 0.235 
      • R-Value Observed: 0.237 
      • Space Group: P 2 21 21
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 41.15α = 90
      b = 49.82β = 90
      c = 170.37γ = 90
      Software Package:
      Software NamePurpose
      REFMACrefinement

      Structure Validation

      View Full Validation Report



      Entry History 

      Deposition Data

      Revision History 

      • Version 1.0: 2010-12-08
        Type: Initial release
      • Version 1.1: 2014-02-26
        Changes: Database references, Source and taxonomy, Version format compliance
      • Version 1.2: 2014-03-19
        Changes: Database references