4F3L

Crystal Structure of the Heterodimeric CLOCK:BMAL1 Transcriptional Activator Complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.27 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.186 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Crystal structure of the heterodimeric CLOCK:BMAL1 transcriptional activator complex.

Huang, N.Chelliah, Y.Shan, Y.Taylor, C.A.Yoo, S.H.Partch, C.Green, C.B.Zhang, H.Takahashi, J.S.

(2012) Science 337: 189-194

  • DOI: https://doi.org/10.1126/science.1222804
  • Primary Citation of Related Structures:  
    4F3L

  • PubMed Abstract: 

    The circadian clock in mammals is driven by an autoregulatory transcriptional feedback mechanism that takes approximately 24 hours to complete. A key component of this mechanism is a heterodimeric transcriptional activator consisting of two basic helix-loop-helix PER-ARNT-SIM (bHLH-PAS) domain protein subunits, CLOCK and BMAL1. Here, we report the crystal structure of a complex containing the mouse CLOCK:BMAL1 bHLH-PAS domains at 2.3 Å resolution. The structure reveals an unusual asymmetric heterodimer with the three domains in each of the two subunits--bHLH, PAS-A, and PAS-B--tightly intertwined and involved in dimerization interactions, resulting in three distinct protein interfaces. Mutations that perturb the observed heterodimer interfaces affect the stability and activity of the CLOCK:BMAL1 complex as well as the periodicity of the circadian oscillator. The structure of the CLOCK:BMAL1 complex is a starting point for understanding at an atomic level the mechanism driving the mammalian circadian clock.


  • Organizational Affiliation

    Department of Biochemistry, University of Texas Southwestern Medical Center, Dallas, TX 75390, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
BMAL1bA [auth B]387Mus musculusMutation(s): 0 
Gene Names: ArntlBMAL1bmal1b
UniProt
Find proteins for Q9WTL8 (Mus musculus)
Explore Q9WTL8 
Go to UniProtKB:  Q9WTL8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9WTL8
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Circadian locomoter output cycles protein kaputB [auth A]361Mus musculusMutation(s): 0 
Gene Names: Clock
EC: 2.3.1.48
UniProt & NIH Common Fund Data Resources
Find proteins for O08785 (Mus musculus)
Explore O08785 
Go to UniProtKB:  O08785
IMPC:  MGI:99698
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO08785
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.27 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.184 
  • R-Value Observed: 0.186 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 67.242α = 90
b = 71.955β = 90
c = 173.306γ = 90
Software Package:
Software NamePurpose
HKL-3000data collection
SHARPphasing
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2012-06-06
    Type: Initial release
  • Version 1.1: 2012-08-01
    Changes: Database references
  • Version 1.2: 2018-12-05
    Changes: Data collection
  • Version 1.3: 2024-02-28
    Changes: Data collection, Database references