5FUR

Structure of human TFIID-IIA bound to core promoter DNA

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Structure of Promoter-Bound TFIID and Model of Human Pre-Initiation Complex Assembly.

Louder, R.K., He, Y., Lopez-Blanco, J.R., Fang, J., Chacon, P., Nogales, E.

(2016) Nature 531: 604

  • DOI: https://doi.org/10.1038/nature17394
  • Primary Citation of Related Structures:  
    5FUR

  • PubMed Abstract: 

    • The general transcription factor IID (TFIID) plays a central role in the initiation of RNA polymerase II (Pol II)-dependent transcription by nucleating pre-initiation complex (PIC) assembly at the core promoter. TFIID comprises the TATA-binding protein (TBP) and 13 TBP-associated factors (TAF1-13), which specifically interact with a variety of core promoter DNA sequences ...

    The general transcription factor IID (TFIID) plays a central role in the initiation of RNA polymerase II (Pol II)-dependent transcription by nucleating pre-initiation complex (PIC) assembly at the core promoter. TFIID comprises the TATA-binding protein (TBP) and 13 TBP-associated factors (TAF1-13), which specifically interact with a variety of core promoter DNA sequences. Here we present the structure of human TFIID in complex with TFIIA and core promoter DNA, determined by single-particle cryo-electron microscopy at sub-nanometre resolution. All core promoter elements are contacted by subunits of TFIID, with TAF1 and TAF2 mediating major interactions with the downstream promoter. TFIIA bridges the TBP-TATA complex with lobe B of TFIID. We also present the cryo-electron microscopy reconstruction of a fully assembled human TAF-less PIC. Superposition of common elements between the two structures provides novel insights into the general role of TFIID in promoter recognition, PIC assembly, and transcription initiation.

    Organizational Affiliation: 

    Howard Hughes Medical Institute, University of California, Berkeley, California 94720, USA.



Macromolecules

Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
TATA-BOX-BINDING PROTEINA339Homo sapiensMutation(s): 0 
Gene Names: TBP, GTF2D1, TF2D, TFIID
UniProt & NIH Common Fund Data Resources
Find proteins for P20226 (Homo sapiens)
Explore P20226 
Go to UniProtKB:  P20226
PHAROS:  P20226
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP20226
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
TRANSCRIPTION INITIATION FACTOR IIA SUBUNIT 1B43Homo sapiensMutation(s): 0 
Gene Names: GTF2A1, TF2A1
UniProt & NIH Common Fund Data Resources
Find proteins for P52655 (Homo sapiens)
Explore P52655 
Go to UniProtKB:  P52655
PHAROS:  P52655
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP52655
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
TRANSCRIPTION INITIATION FACTOR IIA SUBUNIT 1C47Homo sapiensMutation(s): 0 
Gene Names: GTF2A1, TF2A1
UniProt & NIH Common Fund Data Resources
Find proteins for P52655 (Homo sapiens)
Explore P52655 
Go to UniProtKB:  P52655
PHAROS:  P52655
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP52655
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
TRANSCRIPTION INITIATION FACTOR IIA SUBUNIT 2D97Homo sapiensMutation(s): 0 
Gene Names: GTF2A2, TF2A2
UniProt & NIH Common Fund Data Resources
Find proteins for P52657 (Homo sapiens)
Explore P52657 
Go to UniProtKB:  P52657
PHAROS:  P52657
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP52657
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 1G1,893Homo sapiensMutation(s): 0 
Gene Names: TAF1, BA2R, CCG1, CCGS, TAF2A
EC: 2.3.1.48 (PDB Primary Data), 2.7.11.1 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P21675 (Homo sapiens)
Explore P21675 
Go to UniProtKB:  P21675
PHAROS:  P21675
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP21675
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 7H349Homo sapiensMutation(s): 0 
Gene Names: TAF7, TAF2F, TAFII55
UniProt & NIH Common Fund Data Resources
Find proteins for Q15545 (Homo sapiens)
Explore Q15545 
Go to UniProtKB:  Q15545
PHAROS:  Q15545
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ15545
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 2I1,199Homo sapiensMutation(s): 0 
Gene Names: TAF2, CIF150, TAF2B
UniProt & NIH Common Fund Data Resources
Find proteins for Q6P1X5 (Homo sapiens)
Explore Q6P1X5 
Go to UniProtKB:  Q6P1X5
PHAROS:  Q6P1X5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6P1X5
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 6J, K677Homo sapiensMutation(s): 0 
Gene Names: TAF6, TAF2E, TAFII70
UniProt & NIH Common Fund Data Resources
Find proteins for P49848 (Homo sapiens)
Explore P49848 
Go to UniProtKB:  P49848
PHAROS:  P49848
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP49848
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
TRANSCRIPTION INITIATION FACTOR TFIID SUBUNIT 8L310Homo sapiensMutation(s): 0 
Gene Names: TAF8, TAFII43, TBN
UniProt & NIH Common Fund Data Resources
Find proteins for Q7Z7C8 (Homo sapiens)
Explore Q7Z7C8 
Go to UniProtKB:  Q7Z7C8
PHAROS:  Q7Z7C8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ7Z7C8
Protein Feature View
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 5
MoleculeChainsLengthOrganismImage
SUPER CORE PROMOTERE89Homo sapiens
Protein Feature View
Expand
  • Reference Sequence
Find similar nucleic acids by: 
(by identity cutoff)  |  3D Structure
Entity ID: 6
MoleculeChainsLengthOrganismImage
SUPER CORE PROMOTERF93Homo sapiens
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Modified Residues  2 Unique
IDChainsTypeFormula2D DiagramParent
SEP
Query on SEP		G L-PEPTIDE LINKINGC3 H8 N O6 PSER
TPO
Query on TPO		G L-PEPTIDE LINKINGC4 H10 N O6 PTHR
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONBsoft
RECONSTRUCTIONRELION

Structure Validation

View Full Validation Report



View more in-depth experimental data
Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-04-06
    Type: Initial release
  • Version 1.1: 2016-04-13
    Changes: Database references
  • Version 1.2: 2017-08-02
    Changes: Data collection