5U0P

Cryo-EM structure of the transcriptional Mediator


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 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

Mediator structure and rearrangements required for holoenzyme formation.

Tsai, K.L.Yu, X.Gopalan, S.Chao, T.C.Zhang, Y.Florens, L.Washburn, M.P.Murakami, K.Conaway, R.C.Conaway, J.W.Asturias, F.J.

(2017) Nature 544: 196-201

  • DOI: https://doi.org/10.1038/nature21393
  • Primary Citation of Related Structures:  
    5U0P, 5U0S

  • PubMed Abstract: 

    The conserved Mediator co-activator complex has an essential role in the regulation of RNA polymerase II transcription in all eukaryotes. Understanding the structure and interactions of Mediator is crucial for determining how the complex influences transcription initiation and conveys regulatory information to the basal transcription machinery. Here we present a 4.4 Å resolution cryo-electron microscopy map of Schizosaccharomyces pombe Mediator in which conserved Mediator subunits are individually resolved. The essential Med14 subunit works as a central backbone that connects the Mediator head, middle and tail modules. Comparison with a 7.8 Å resolution cryo-electron microscopy map of a Mediator-RNA polymerase II holoenzyme reveals that changes in the structure of Med14 facilitate a large-scale Mediator rearrangement that is essential for holoenzyme formation. Our study suggests that access to different conformations and crosstalk between structural elements are essential for the Mediator regulation mechanism, and could explain the capacity of the complex to integrate multiple regulatory signals.


  • Organizational Affiliation

    Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla California, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 14A [auth N]931Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for Q9P7Y4 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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UniProt GroupQ9P7Y4
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 6B [auth F]216Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for Q9US45 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 8C [auth H]200Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for O94646 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 17D [auth Q]545Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for P87306 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 18E [auth R]207Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for O14198 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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UniProt GroupO14198
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 20F [auth T]193Schizosaccharomyces pombeMutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 11G [auth K]116Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for Q9P6Q0 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 22H [auth V]136Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for O14010 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 4I [auth D]239Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 7J [auth G]376Schizosaccharomyces pombeMutation(s): 0 
UniProt
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 21K [auth U]138Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for O94376 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 31L [auth 3]139Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for Q9USH1 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 9M [auth I]121Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for O13964 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 27N [auth 2]273Schizosaccharomyces pombeMutation(s): 0 
UniProt
Find proteins for Q10477 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 19O [auth S]139Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Mediator complex subunit 10P [auth J]132Schizosaccharomyces pombeMutation(s): 0 
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION1.4

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2017-03-08
    Type: Initial release
  • Version 1.1: 2017-03-15
    Changes: Database references
  • Version 1.2: 2017-04-19
    Changes: Database references
  • Version 1.3: 2018-07-18
    Changes: Data collection
  • Version 1.4: 2024-03-13
    Changes: Data collection, Database references