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 4WV6 | pdb_00004wv6

Heterodimer of Importin alpha 1 with nuclear localization signal of TAF8


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free: 
    0.180 (Depositor), 0.179 (DCC) 
  • R-Value Work: 
    0.153 (Depositor), 0.157 (DCC) 
  • R-Value Observed: 
    0.155 (Depositor) 

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 4WV6

This is version 1.1 of the entry. See complete history. 

Literature

Cytoplasmic TAF2-TAF8-TAF10 complex provides evidence for nuclear holo-TFIID assembly from preformed submodules.

Trowitzsch, S., Viola, C., Scheer, E., Conic, S., Chavant, V., Fournier, M., Papai, G., Ebong, I.O., Schaffitzel, C., Zou, J., Haffke, M., Rappsilber, J., Robinson, C.V., Schultz, P., Tora, L., Berger, I.

(2015) Nat Commun 6: 6011-6011

  • DOI: https://doi.org/10.1038/ncomms7011
  • Primary Citation Related Structures: 
    4WV4, 4WV6

  • PubMed Abstract: 

    General transcription factor TFIID is a cornerstone of RNA polymerase II transcription initiation in eukaryotic cells. How human TFIID-a megadalton-sized multiprotein complex composed of the TATA-binding protein (TBP) and 13 TBP-associated factors (TAFs)-assembles into a functional transcription factor is poorly understood. Here we describe a heterotrimeric TFIID subcomplex consisting of the TAF2, TAF8 and TAF10 proteins, which assembles in the cytoplasm. Using native mass spectrometry, we define the interactions between the TAFs and uncover a central role for TAF8 in nucleating the complex. X-ray crystallography reveals a non-canonical arrangement of the TAF8-TAF10 histone fold domains. TAF2 binds to multiple motifs within the TAF8 C-terminal region, and these interactions dictate TAF2 incorporation into a core-TFIID complex that exists in the nucleus. Our results provide evidence for a stepwise assembly pathway of nuclear holo-TFIID, regulated by nuclear import of preformed cytoplasmic submodules.


  • Organizational Affiliation: 
    • 1] European Molecular Biology Laboratory, Grenoble Outstation, 6 rue Jules Horowitz, 38042 Grenoble, France [2] Unit for Virus Host-Cell Interactions, University Grenoble Alpes-EMBL-CNRS, 6 rue Jules Horowitz, 38042 Grenoble, France.

Macromolecule Content 

  • Total Structure Weight: 55.08 kDa 
  • Atom Count: 3,877 
  • Modeled Residue Count: 438 
  • Deposited Residue Count: 499 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Importin subunit alpha-1471Homo sapiensMutation(s): 0 
Gene Names: KPNA2, RCH1, SRP1
UniProt & NIH Common Fund Data Resources
Find proteins for P52292 (Homo sapiens)
Explore P52292 
Go to UniProtKB:  P52292
PHAROS:  P52292
GTEx:  ENSG00000182481 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP52292
Sequence Annotations
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Reference Sequence
Find similar proteins by:  Sequence   |   3D Structure  
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 8
B, C
14Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q7Z7C8 (Homo sapiens)
Explore Q7Z7C8 
Go to UniProtKB:  Q7Z7C8
PHAROS:  Q7Z7C8
GTEx:  ENSG00000137413 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ7Z7C8
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
EDO

Query on EDO



Download:Ideal Coordinates CCD File
D [auth A]
E [auth A]
F [auth A]
G [auth A]
H [auth A]
D [auth A],
E [auth A],
F [auth A],
G [auth A],
H [auth A],
I [auth A],
J [auth A],
K [auth A],
L [auth A],
M [auth A],
N [auth A],
O [auth A]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.75 Å
  • R-Value Free:  0.180 (Depositor), 0.179 (DCC) 
  • R-Value Work:  0.153 (Depositor), 0.157 (DCC) 
  • R-Value Observed: 0.155 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 54.27α = 90
b = 77.72β = 90
c = 128.57γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing
Cootmodel building

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Commission (EC) Research Executive Agency (REA)France254671

Revision History  (Full details and data files)

  • Version 1.0: 2015-01-28
    Type: Initial release
  • Version 1.1: 2024-01-10
    Changes: Data collection, Database references, Refinement description