1NGM

Crystal structure of a yeast Brf1-TBP-DNA ternary complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.308 
  • R-Value Work: 0.276 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Crystal structure of a transcription factor IIIB core interface ternary complex

Juo, Z.S.Kassavetis, G.A.Wang, J.Geiduschek, E.P.Sigler, P.B.

(2003) Nature 422: 534-539

  • DOI: 10.1038/nature01534

  • PubMed Abstract: 
  • Transcription factor IIIB (TFIIIB), consisting of the TATA-binding protein (TBP), TFIIB-related factor (Brf1) and Bdp1, is a central component in basal and regulated transcription by RNA polymerase III. TFIIIB recruits its polymerase to the promoter ...

    Transcription factor IIIB (TFIIIB), consisting of the TATA-binding protein (TBP), TFIIB-related factor (Brf1) and Bdp1, is a central component in basal and regulated transcription by RNA polymerase III. TFIIIB recruits its polymerase to the promoter and subsequently has an essential role in the formation of the open initiation complex. The amino-terminal half of Brf1 shares a high degree of sequence similarity with the polymerase II general transcription factor TFIIB, but it is the carboxy-terminal half of Brf1 that contributes most of its binding affinity with TBP. The principal anchoring region is located between residues 435 and 545 of yeast Brf1, comprising its homology domain II. The same region also provides the primary interface for assembling Bdp1 into the TFIIIB complex. We report here a 2.95 A resolution crystal structure of the ternary complex containing Brf1 homology domain II, the conserved region of TBP and 19 base pairs of U6 promoter DNA. The structure reveals the core interface for assembly of TFIIIB and demonstrates how the loosely packed Brf1 domain achieves remarkable binding specificity with the convex and lateral surfaces of TBP.


    Organizational Affiliation

    Department of Molecular Biophysics & Biochemistry, Yale University, 266 Whitney Avenue, New Haven, Connecticut 06520-8114, USA. juo@csb.yale.edu




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Transcription initiation factor TFIID
A, E, I, M
180Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Gene Names: SPT15 (BTF1, TBP1)
Find proteins for P13393 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to UniProtKB:  P13393
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Transcription factor IIIB BRF1 subunit
B, F, J, N
72Saccharomyces cerevisiae (strain ATCC 204508 / S288c)Gene Names: BRF1 (PCF4, TDS4)
Find proteins for P29056 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Go to Gene View: BRF1
Go to UniProtKB:  P29056
Entity ID: 1
MoleculeChainsLengthOrganism
5'-D(*CP*TP*AP*TP*AP*AP*AP*AP*AP*AP*AP*TP*GP*TP*TP*TP*TP*TP*T)-3'C,G,K,O19N/A
Entity ID: 2
MoleculeChainsLengthOrganism
5'-D(*AP*AP*AP*AP*AP*AP*CP*AP*TP*TP*TP*TP*TP*TP*TP*AP*TP*AP*G)-3'D,H,L,P19N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.95 Å
  • R-Value Free: 0.308 
  • R-Value Work: 0.276 
  • Space Group: P 21 21 2
Unit Cell:
Length (Å)Angle (°)
a = 93.610α = 90.00
b = 152.600β = 90.00
c = 256.638γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data reduction
HKL-2000data collection
REFMACrefinement
SCALEPACKdata scaling
SHARPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-03-25
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance