8ETS

Class1 of the INO80-Hexasome complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.04 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Reorientation of INO80 on hexasomes reveals basis for mechanistic versatility.

Wu, H.Munoz, E.N.Hsieh, L.J.Chio, U.S.Gourdet, M.A.Narlikar, G.J.Cheng, Y.

(2023) Science 381: 319-324

  • DOI: https://doi.org/10.1126/science.adf4197
  • Primary Citation of Related Structures:  
    8ETS, 8ETT, 8ETU, 8ETV, 8ETW, 8EU2, 8EU9, 8EUE, 8EUF, 8EUJ

  • PubMed Abstract: 

    Unlike other chromatin remodelers, INO80 preferentially mobilizes hexasomes, which can form during transcription. Why INO80 prefers hexasomes over nucleosomes remains unclear. Here, we report structures of Saccharomyces cerevisiae INO80 bound to a hexasome or a nucleosome. INO80 binds the two substrates in substantially different orientations. On a hexasome, INO80 places its ATPase subunit, Ino80, at superhelical location -2 (SHL -2), in contrast to SHL -6 and SHL -7, as previously seen on nucleosomes. Our results suggest that INO80 action on hexasomes resembles action by other remodelers on nucleosomes such that Ino80 is maximally active near SHL -2. The SHL -2 position also plays a critical role for nucleosome remodeling by INO80. Overall, the mechanistic adaptations used by INO80 for preferential hexasome sliding imply that subnucleosomal particles play considerable regulatory roles.


  • Organizational Affiliation

    Department of Biochemistry and Biophysics, University of California San Francisco, San Francisco, CA 94158, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Chromatin-remodeling ATPase INO80A [auth Q]485Saccharomyces cerevisiae S288CMutation(s): 0 
EC: 3.6.4
UniProt
Find proteins for P53115 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Go to UniProtKB:  P53115
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UniProt GroupP53115
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Actin-related protein 5B [auth R]744Saccharomyces cerevisiae S288CMutation(s): 0 
UniProt
Find proteins for P53946 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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UniProt GroupP53946
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Chromatin-remodeling complex subunit IES6C [auth S]139Saccharomyces cerevisiae S288CMutation(s): 0 
UniProt
Find proteins for P32617 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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UniProt GroupP32617
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
RuvB-like protein 1D [auth T],
F [auth V],
H [auth X]
443Saccharomyces cerevisiae S288CMutation(s): 0 
EC: 3.6.4.12
UniProt
Find proteins for Q03940 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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UniProt GroupQ03940
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
RuvB-like protein 2E [auth U],
G [auth W],
I [auth Y]
457Saccharomyces cerevisiae S288CMutation(s): 0 
EC: 3.6.4.12
UniProt
Find proteins for Q12464 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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UniProt GroupQ12464
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Ino eighty subunit 2J [auth Z]28Saccharomyces cerevisiae S288CMutation(s): 0 
UniProt
Find proteins for P40154 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.04 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/Eunice Kennedy Shriver National Institute of Child Health & Human Development (NIH/NICHD)United States--

Revision History  (Full details and data files)

  • Version 1.0: 2023-07-19
    Type: Initial release
  • Version 1.1: 2023-08-02
    Changes: Database references
  • Version 1.2: 2024-06-19
    Changes: Data collection