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
  • 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 ...

    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
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 6 F216Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q9US45 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 8 H200Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O94646 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 17 Q545Schizosaccharomyces pombeMutation(s): 0 
Find proteins for P87306 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 18 R207Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O14198 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 20 T193Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q10317 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 11 K116Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q9P6Q0 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 22 V136Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O14010 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 14 N931Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q9P7Y4 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 4 D239Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 7 G376Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O60104 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 21 U138Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 31 3139Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 13
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Mediator complex subunit 27 2273Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q10477 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 14
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Mediator complex subunit 9 I121Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O13964 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 15
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Mediator complex subunit 19 S139Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 16
MoleculeChainsSequence LengthOrganismDetailsImage
Mediator complex subunit 10 J132Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 17
MoleculeChainsSequence LengthOrganismDetailsImage
RNA polymerase II subunit Rpb1 a1752Schizosaccharomyces 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 LengthOrganismDetailsImage
RNA polymerase II subunit Rpb2 b1210Schizosaccharomyces 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
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RNA polymerase II subunit Rpb3 c297Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 20
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RNA polymerase II subunit Rpb4 d135Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 21
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RNA polymerase II subunit Rpb5 e210Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 22
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RNA polymerase II subunit Rpb6 f142Schizosaccharomyces pombeMutation(s): 0 
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Entity ID: 23
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RNA polymerase II subunit Rpb7 g172Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O14459 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 24
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RNA polymerase II subunit Rpb8 h125Schizosaccharomyces pombeMutation(s): 0 
Find proteins for Q92399 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 25
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RNA polymerase II subunit Rpb9 i113Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O74635 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 26
MoleculeChainsSequence LengthOrganismDetailsImage
RNA polymerase II subunit Rpb10 j71Schizosaccharomyces pombeMutation(s): 0 
Find proteins for O13877 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 27
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RNA polymerase II subunit Rpb11 k123Schizosaccharomyces pombeMutation(s): 0 
Find proteins for P87123 (Schizosaccharomyces pombe (strain 972 / ATCC 24843))
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Entity ID: 28
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RNA polymerase II subunit Rpb12 l63Schizosaccharomyces pombeMutation(s): 0 
Find proteins for P48011 (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  (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: 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