5U0S

Cryo-EM structure of the Mediator-RNAPII complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.5 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: 10.1038/nature21393
  • Structures With Same Primary Citation

  • 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 t ...

    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: 2
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 8H200Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O94646 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 17Q545Schizosaccharomyces pombeMutation(s): 0 
Find proteins for P87306 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 18R207Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O14198 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 20T193Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q10317 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 11K116Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q9P6Q0 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Go to UniProtKB:  Q9P6Q0
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 22V136Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O14010 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 14N931Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q9P7Y4 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 4D239Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 7G376Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O60104 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 21U138Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O94376 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 313139Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q9USH1 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 272273Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q10477 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 9I121Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O13964 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 19S139Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 10J132Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb1a1752Schizosaccharomyces pombeMutation(s): 0 
EC: 2.7.7.6
Find proteins for P36594 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb2b1210Schizosaccharomyces pombeMutation(s): 0 
EC: 2.7.7.6
Find proteins for Q02061 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb3c297Schizosaccharomyces pombeMutation(s): 0 
Find proteins for P37382 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb4d135Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O74825 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb5e210Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q09191 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 22
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb6f142Schizosaccharomyces pombeMutation(s): 0 
Find proteins for P36595 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 23
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb7g172Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O14459 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 24
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb8h125Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q92399 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 25
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb9i113Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O74635 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb10j71Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O13877 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 27
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb11k123Schizosaccharomyces pombeMutation(s): 0 
Find proteins for P87123 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 28
MoleculeChainsSequence LengthOrganismDetails
RNA polymerase II subunit Rpb12l63Schizosaccharomyces pombeMutation(s): 0 
Find proteins for P48011 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Mediator complex subunit 6F216Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q9US45 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM67167
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM41628

Revision History 

  • 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: 2017-09-13
    Changes: Author supporting evidence, Data collection
  • Version 1.4: 2018-07-18
    Changes: Data collection, Experimental preparation
  • Version 1.5: 2020-01-01
    Changes: Author supporting evidence