6MZM

Human TFIID bound to promoter DNA and TFIIA


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Structure of human TFIID and mechanism of TBP loading onto promoter DNA.

Patel, A.B.Louder, R.K.Greber, B.J.Grunberg, S.Luo, J.Fang, J.Liu, Y.Ranish, J.Hahn, S.Nogales, E.

(2018) Science 362

  • DOI: https://doi.org/10.1126/science.aau8872
  • Primary Citation of Related Structures:  
    6MZC, 6MZD, 6MZL, 6MZM

  • PubMed Abstract: 

    The general transcription factor IID (TFIID) is a critical component of the eukaryotic transcription preinitiation complex (PIC) and is responsible for recognizing the core promoter DNA and initiating PIC assembly. We used cryo-electron microscopy, chemical cross-linking mass spectrometry, and biochemical reconstitution to determine the complete molecular architecture of TFIID and define the conformational landscape of TFIID in the process of TATA box-binding protein (TBP) loading onto promoter DNA. Our structural analysis revealed five structural states of TFIID in the presence of TFIIA and promoter DNA, showing that the initial binding of TFIID to the downstream promoter positions the upstream DNA and facilitates scanning of TBP for a TATA box and the subsequent engagement of the promoter. Our findings provide a mechanistic model for the specific loading of TBP by TFIID onto the promoter.


  • Organizational Affiliation

    Biophysics Graduate Group, University of California, Berkeley, CA 94720, USA.


Macromolecules

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 1, TAF1496Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P21675 (Homo sapiens)
Explore P21675 
Go to UniProtKB:  P21675
PHAROS:  P21675
GTEx:  ENSG00000147133 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP21675
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 2, TAF21,199Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q6P1X5 (Homo sapiens)
Explore Q6P1X5 
Go to UniProtKB:  Q6P1X5
PHAROS:  Q6P1X5
GTEx:  ENSG00000064313 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6P1X5
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 4, TAF4C [auth D]1,025Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for O00268 (Homo sapiens)
Explore O00268 
Go to UniProtKB:  O00268
PHAROS:  O00268
GTEx:  ENSG00000130699 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO00268
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 5,TAF5D [auth G]800Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q15542 (Homo sapiens)
Explore Q15542 
Go to UniProtKB:  Q15542
PHAROS:  Q15542
GTEx:  ENSG00000148835 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ15542
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 6E [auth H]677Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P49848 (Homo sapiens)
Explore P49848 
Go to UniProtKB:  P49848
PHAROS:  P49848
GTEx:  ENSG00000106290 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP49848
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 6F [auth I]677Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P49848 (Homo sapiens)
Explore P49848 
Go to UniProtKB:  P49848
PHAROS:  P49848
GTEx:  ENSG00000106290 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP49848
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 7G [auth J]349Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q15545 (Homo sapiens)
Explore Q15545 
Go to UniProtKB:  Q15545
PHAROS:  Q15545
GTEx:  ENSG00000178913 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ15545
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 8, TAF8H [auth K]310Homo 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
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 9, TAF9I [auth L]264Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q16594 (Homo sapiens)
Explore Q16594 
Go to UniProtKB:  Q16594
PHAROS:  Q16594
GTEx:  ENSG00000273841 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ16594
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 10J [auth O]218Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q12962 (Homo sapiens)
Explore Q12962 
Go to UniProtKB:  Q12962
PHAROS:  Q12962
GTEx:  ENSG00000166337 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ12962
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor TFIID subunit 12K [auth R]161Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q16514 (Homo sapiens)
Explore Q16514 
Go to UniProtKB:  Q16514
PHAROS:  Q16514
GTEx:  ENSG00000120656 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ16514
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
TATA-box-binding proteinL [auth T]339Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P20226 (Homo sapiens)
Explore P20226 
Go to UniProtKB:  P20226
PHAROS:  P20226
GTEx:  ENSG00000112592 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP20226
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor IIA subunit 1O [auth W]90Homo sapiensMutation(s): 0 
Gene Names: GTF2A1TF2A1
UniProt & NIH Common Fund Data Resources
Find proteins for P52655 (Homo sapiens)
Explore P52655 
Go to UniProtKB:  P52655
PHAROS:  P52655
GTEx:  ENSG00000165417 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP52655
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Transcription initiation factor IIA subunit 2P [auth X]97Homo sapiensMutation(s): 0 
Gene Names: GTF2A2TF2A2
UniProt & NIH Common Fund Data Resources
Find proteins for P52657 (Homo sapiens)
Explore P52657 
Go to UniProtKB:  P52657
PHAROS:  P52657
GTEx:  ENSG00000140307 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP52657
Sequence Annotations
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
UnkQ [auth Z]238Homo sapiensMutation(s): 0 
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 13
MoleculeChains LengthOrganismImage
SCP DNA (80-MER)M [auth U]80Homo sapiens
Sequence Annotations
Expand
  • Reference Sequence
Find similar nucleic acids by:  (by identity cutoff)  |  3D Structure
Entity ID: 14
MoleculeChains LengthOrganismImage
SCP DNA (80-MER)N [auth V]80Homo sapiens
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Howard Hughes Medical Institute (HHMI)United States--
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01-GM63072

Revision History  (Full details and data files)

  • Version 1.0: 2018-11-28
    Type: Initial release
  • Version 1.1: 2019-01-02
    Changes: Data collection, Database references
  • Version 1.2: 2019-11-20
    Changes: Author supporting evidence
  • Version 1.3: 2019-12-18
    Changes: Other
  • Version 1.4: 2024-03-13
    Changes: Data collection, Database references