5N9G

TFIIIB -TBP/Brf2/DNA and SANT domain of Bdp1-


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.194 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Molecular mechanisms of Bdp1 in TFIIIB assembly and RNA polymerase III transcription initiation.

Gouge, J.Guthertz, N.Kramm, K.Dergai, O.Abascal-Palacios, G.Satia, K.Cousin, P.Hernandez, N.Grohmann, D.Vannini, A.

(2017) Nat Commun 8: 130-130

  • DOI: 10.1038/s41467-017-00126-1

  • PubMed Abstract: 
  • Initiation of gene transcription by RNA polymerase (Pol) III requires the activity of TFIIIB, a complex formed by Brf1 (or Brf2), TBP (TATA-binding protein), and Bdp1. TFIIIB is required for recruitment of Pol III and to promote the transition from a ...

    Initiation of gene transcription by RNA polymerase (Pol) III requires the activity of TFIIIB, a complex formed by Brf1 (or Brf2), TBP (TATA-binding protein), and Bdp1. TFIIIB is required for recruitment of Pol III and to promote the transition from a closed to an open Pol III pre-initiation complex, a process dependent on the activity of the Bdp1 subunit. Here, we present a crystal structure of a Brf2-TBP-Bdp1 complex bound to DNA at 2.7 Å resolution, integrated with single-molecule FRET analysis and in vitro biochemical assays. Our study provides a structural insight on how Bdp1 is assembled into TFIIIB complexes, reveals structural and functional similarities between Bdp1 and Pol II factors TFIIA and TFIIF, and unravels essential interactions with DNA and with the upstream factor SNAPc. Furthermore, our data support the idea of a concerted mechanism involving TFIIIB and RNA polymerase III subunits for the closed to open pre-initiation complex transition.Transcription initiation by RNA polymerase III requires TFIIIB, a complex formed by Brf1/Brf2, TBP and Bdp1. Here, the authors describe the crystal structure of a Brf2-TBP-Bdp1 complex bound to a DNA promoter and characterize the role of Bdp1 in TFIIIB assembly and pre-initiation complex formation.


    Organizational Affiliation

    The Institute of Cancer Research, London, SW7 3RP, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transcription factor IIIB 50 kDa subunit
A, F
377Homo sapiensGene Names: BRF2 (BRFU)
Find proteins for Q9HAW0 (Homo sapiens)
Go to Gene View: BRF2
Go to UniProtKB:  Q9HAW0
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
TATA-box-binding protein
B, G
200Homo sapiensGene Names: TBP (GTF2D1, TF2D, TFIID)
Find proteins for P20226 (Homo sapiens)
Go to Gene View: TBP
Go to UniProtKB:  P20226
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Transcription factor TFIIIB component B'' homolog
C, H
175Homo sapiensGene Names: BDP1 (KIAA1241, KIAA1689, TFNR)
Find proteins for A6H8Y1 (Homo sapiens)
Go to Gene View: BDP1
Go to UniProtKB:  A6H8Y1
Entity ID: 4
MoleculeChainsLengthOrganism
DNA/RNA (27-MER)D,I27Homo sapiens
Entity ID: 5
MoleculeChainsLengthOrganism
DNA/RNA (25-MER)E,J25Homo sapiens
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
H
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.194 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 81.190α = 90.00
b = 124.080β = 99.51
c = 88.610γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
BUSTERrefinement
XSCALEdata scaling
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationCountryGrant Number
Biotechnology and Biological Sciences Research CouncilUnited KingdomBB/K014390/1
Cancer Research UKUnited KingdomC47547/A21536
Wellcome TrustUnited Kingdom200818/Z/16/Z

Revision History 

  • Version 1.0: 2017-06-14
    Type: Initial release
  • Version 1.1: 2017-08-02
    Type: Database references
  • Version 1.2: 2017-08-09
    Type: Database references
  • Version 1.3: 2017-08-30
    Type: Author supporting evidence