1NVP

HUMAN TFIIA/TBP/DNA COMPLEX


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.229 
  • R-Value Observed: 0.229 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Novel interactions between the components of human and yeast TFIIA/TBP/DNA complexes.

Bleichenbacher, M.Tan, S.Richmond, T.J.

(2003) J Mol Biol 332: 783-793

  • DOI: 10.1016/s0022-2836(03)00887-8
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • RNA polymerase II-dependent transcription requires the assembly of a multi-protein, preinitiation complex on core promoter elements. Transcription factor IID (TFIID) comprising the TATA box-binding protein (TBP) and TBP-associated factors (TAFs) is r ...

    RNA polymerase II-dependent transcription requires the assembly of a multi-protein, preinitiation complex on core promoter elements. Transcription factor IID (TFIID) comprising the TATA box-binding protein (TBP) and TBP-associated factors (TAFs) is responsible for promoter recognition in this complex. Subsequent association of TFIIA and TFIIB provides enhanced complex stability. TFIIA is required for transcriptional stimulation by certain viral and cellular activators, and favors formation of the preinitiation complex in the presence of repressor NC2. The X-ray structures of human and yeast TBP/TFIIA/DNA complexes at 2.1A and 1.9A resolution, respectively, are presented here and seen to resemble each other closely. The interactions made by human TFIIA with TBP and DNA within and upstream of the TATA box, including those involving water molecules, are described and compared to the yeast structure. Of particular interest is a previously unobserved region of TFIIA that extends the binding interface with TBP in the yeast, but not in the human complex, and that further elucidates biochemical and genetic results.


    Organizational Affiliation

    ETH Zürich, Institute for Molecular Biology and Biophysics, ETH-Hönggerberg, CH-8093 Zürich, Switzerland.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
TATA box binding protein
A
181Homo sapiensMutation(s): 0 
Gene Names: TBP OR TFIID OR TF2DTBPGTF2D1TF2DTFIID
Find proteins for P20226 (Homo sapiens)
Go to UniProtKB:  P20226
NIH Common Fund Data Resources
PHAROS  P20226

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Transcription initiation factor IIA alpha chain
B
57Homo sapiensMutation(s): 0 
Gene Names: GTF2A1 OR TF2A1GTF2A1TF2A1
Find proteins for P52655 (Homo sapiens)
Go to UniProtKB:  P52655
NIH Common Fund Data Resources
PHAROS  P52655

Find similar proteins by: Sequence  |  Structure

Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Transcription initiation factor IIA beta chain
C
76Homo sapiensMutation(s): 0 
Gene Names: GTF2A1 OR TF2A1GTF2A1TF2A1
Find proteins for P52655 (Homo sapiens)
Go to UniProtKB:  P52655
NIH Common Fund Data Resources
PHAROS  P52655

Find similar proteins by: Sequence  |  Structure

Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Transcription initiation factor IIA gamma chain
D
108Homo sapiensMutation(s): 0 
Gene Names: GTF2A2 OR TF2A2GTF2A2TF2A2
Find proteins for P52657 (Homo sapiens)
Go to UniProtKB:  P52657
NIH Common Fund Data Resources
PHAROS  P52657
  • Find similar nucleic acids by: Sequence   |   Structure
Entity ID: 1
MoleculeChainsLengthOrganism
5'-D(*GP*GP*GP*GP*GP*GP*GP*CP*TP*AP*TP*AP*AP*AP*AP*GP*G)-3'E17N/A
  • Find similar nucleic acids by: Sequence   |   Structure
Entity ID: 2
MoleculeChainsLengthOrganism
5'-D(*CP*CP*TP*TP*TP*TP*AP*TP*AP*GP*CP*CP*CP*CP*CP*CP*C)-3'F17N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.10 Å
  • R-Value Free: 0.247 
  • R-Value Work: 0.229 
  • R-Value Observed: 0.229 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 59.624α = 90
b = 90.884β = 90
c = 125.256γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing
CNSrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2003-10-21
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance