2WT7

Crystal structure of the bZIP heterodimeric complex MafB:cFos bound to DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.230 

wwPDB Validation   3D Report Full Report


This is version 1.4 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-binding repertoires on distinct regulatory elements ...

    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

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PROTO-ONCOGENE PROTEIN C-FOSA63Mus musculusMutation(s): 0 
Gene Names: Fos
UniProt & NIH Common Fund Data Resources
Find proteins for P01101 (Mus musculus)
Explore P01101 
Go to UniProtKB:  P01101
IMPC:  MGI:95574
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01101
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
TRANSCRIPTION FACTOR MAFBB90Mus musculusMutation(s): 1 
Gene Names: MafbKrmlMaf1
UniProt
Find proteins for P54841 (Mus musculus)
Explore P54841 
Go to UniProtKB:  P54841
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP54841
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Entity ID: 3
MoleculeChainsLengthOrganismImage
MODIFIED T-MARE MOTIFC 16synthetic construct
Protein Feature View
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  • Reference Sequence

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Entity ID: 4
MoleculeChainsLengthOrganismImage
MODIFIED T-MARE MOTIFD 16synthetic construct
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
PO4
Query on PO4

Download Ideal Coordinates CCD File 
E [auth C]PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.256 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.230 
  • Space Group: P 62
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 146.676α = 90
b = 146.676β = 90
c = 51.117γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
SHELXDphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-09-29
    Type: Initial release
  • Version 1.1: 2014-02-05
    Changes: Database references, Source and taxonomy, Version format compliance
  • Version 1.2: 2014-02-26
    Changes: Database references
  • Version 1.3: 2014-03-19
    Changes: Database references
  • Version 1.4: 2019-07-17
    Changes: Data collection