1D3U

TATA-BINDING PROTEIN/TRANSCRIPTION FACTOR (II)B/BRE+TATA-BOX COMPLEX FROM PYROCOCCUS WOESEI


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.206 
  • R-Value Observed: 0.212 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

The structural basis for the oriented assembly of a TBP/TFB/promoter complex.

Littlefield, O.Korkhin, Y.Sigler, P.B.

(1999) Proc Natl Acad Sci U S A 96: 13668-13673

  • DOI: https://doi.org/10.1073/pnas.96.24.13668
  • Primary Citation of Related Structures:  
    1D3U

  • PubMed Abstract: 

    Recently the definition of the metazoan RNA polymerase II and archaeal core promoters has been expanded to include a region immediately upstream of the TATA box called the B recognition element (BRE), so named because eukaryal transcription factor TFIIB and its archaeal orthologue TFB interact with the element in a sequence-specific manner. Here we present the 2.4-A crystal structure of archaeal TBP and the C-terminal core of TFB (TFB(c)) in a complex with an extended TATA-box-containing promoter that provides a detailed picture of the stereospecific interactions between the BRE and a helix-turn-helix motif in the C-terminal cyclin repeat of TFB(c). This interaction is important in determining the level of basal transcription and explicitly defines the direction of transcription.


  • Organizational Affiliation

    Department of Molecular Biophysics, Yale University, New Haven CT 06511, USA.


Macromolecules

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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
TATA-BINDING PROTEINC [auth A]181Pyrococcus woeseiMutation(s): 0 
UniProt
Find proteins for P62001 (Pyrococcus woesei)
Explore P62001 
Go to UniProtKB:  P62001
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62001
Sequence Annotations
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
TRANSCRIPTION INITIATION FACTOR IIBD [auth B]201Pyrococcus woeseiMutation(s): 1 
UniProt
Find proteins for P61999 (Pyrococcus woesei)
Explore P61999 
Go to UniProtKB:  P61999
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP61999
Sequence Annotations
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  • Reference Sequence

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Entity ID: 1
MoleculeChains LengthOrganismImage
DNA 24-MER: BRE+TATA-BOXA [auth C]24N/A
Sequence Annotations
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  • Reference Sequence

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Entity ID: 2
MoleculeChains LengthOrganismImage
DNA 23-MER: BRE+TATA-BOXB [auth D]23N/A
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.40 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.206 
  • R-Value Observed: 0.212 
  • Space Group: I 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 174.2α = 90
b = 174.2β = 90
c = 174.2γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
SCALAdata scaling
CNSrefinement
HKL-2000data reduction
CCP4data scaling
CNSphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1999-11-15
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2021-11-03
    Changes: Database references