6T9I

cryo-EM structure of transcription coactivator SAGA


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structure of the transcription coactivator SAGA.

Wang, H.Dienemann, C.Stutzer, A.Urlaub, H.Cheung, A.C.M.Cramer, P.

(2020) Nature 577: 717-720

  • DOI: 10.1038/s41586-020-1933-5
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Gene transcription by RNA polymerase II is regulated by activator proteins that recruit the coactivator complexes SAGA (Spt-Ada-Gcn5-acetyltransferase) 1,2 and transcription factor IID (TFIID) 2-4 . SAGA is required for all reg ...

    Gene transcription by RNA polymerase II is regulated by activator proteins that recruit the coactivator complexes SAGA (Spt-Ada-Gcn5-acetyltransferase) 1,2 and transcription factor IID (TFIID) 2-4 . SAGA is required for all regulated transcription 5 and is conserved among eukaryotes 6 . SAGA contains four modules 7-9 : the activator-binding Tra1 module, the core module, the histone acetyltransferase (HAT) module and the histone deubiquitination (DUB) module. Previous studies provided partial structures 10-14 , but the structure of the central core module is unknown. Here we present the cryo-electron microscopy structure of SAGA from the yeast Saccharomyces cerevisiae and resolve the core module at 3.3 Å resolution. The core module consists of subunits Taf5, Sgf73 and Spt20, and a histone octamer-like fold. The octamer-like fold comprises the heterodimers Taf6-Taf9, Taf10-Spt7 and Taf12-Ada1, and two histone-fold domains in Spt3. Spt3 and the adjacent subunit Spt8 interact with the TATA box-binding protein (TBP) 2,7,15-17 . The octamer-like fold and its TBP-interacting region are similar in TFIID, whereas Taf5 and the Taf6 HEAT domain adopt distinct conformations. Taf12 and Spt20 form flexible connections to the Tra1 module, whereas Sgf73 tethers the DUB module. Binding of a nucleosome to SAGA displaces the HAT and DUB modules from the core-module surface, allowing the DUB module to bind one face of an ubiquitinated nucleosome.


    Organizational Affiliation

    Max Planck Institute for Biophysical Chemistry, Department of Molecular Biology, Göttingen, Germany. pcramer@mpibpc.mpg.de.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transcription factor SPT20B604Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: SPT20ADA5YOL148C
Find proteins for P50875 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Protein SPT3C337Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: SPT3YDR392WD9509.12
Find proteins for P06844 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Transcription initiation factor TFIID subunit 5D798Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: TAF5TAF90YBR198CYBR1410
Find proteins for P38129 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Transcription initiation factor TFIID subunit 6E516Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: TAF6TAF60YGL112CG2985
Find proteins for P53040 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Transcription initiation factor TFIID subunit 9F157Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: TAF9TAF17YMR236WYM9959.18
Find proteins for Q05027 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Transcription initiation factor TFIID subunit 10G206Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: TAF10TAF23TAF25YDR167WYD9489.02
Find proteins for Q12030 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
Transcriptional coactivator HFI1/ADA1H488Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: HFI1ADA1SUP110YPL254W
Find proteins for Q12060 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
Transcription initiation factor TFIID subunit 12I539Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: TAF12TAF61TAF68YDR145WYD8358.02
Find proteins for Q03761 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Transcriptional activator SPT7K1332Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: SPT7YBR081CYBR0739
Find proteins for P35177 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
SAGA-associated factor 73Q657Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: SGF73YGL066W
Find proteins for P53165 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
Transcription-associated protein 1T3744Saccharomyces cerevisiae S288CMutation(s): 0 
Gene Names: TRA1YHR099W
Find proteins for P38811 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
unassigned sequenceU155Saccharomyces cerevisiae S288CMutation(s): 0 
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
German Research FoundationGermanySFB860, SPP1935, EXC 2067/1-390729940
European Research CouncilGermany693023

Revision History 

  • Version 1.0: 2020-01-29
    Type: Initial release
  • Version 1.1: 2020-02-19
    Changes: Database references