6H25

Human nuclear RNA exosome EXO-10-MPP6 complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 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

Distinct and evolutionary conserved structural features of the human nuclear exosome complex.

Gerlach, P.Schuller, J.M.Bonneau, F.Basquin, J.Reichelt, P.Falk, S.Conti, E.

(2018) Elife 7

  • DOI: 10.7554/eLife.38686
  • Primary Citation of Related Structures:  
    6H25

  • PubMed Abstract: 
  • The nuclear RNA exosome complex mediates the processing of structured RNAs and the decay of aberrant non-coding RNAs, an important function particularly in human cells. Most mechanistic studies to date have focused on the yeast system. Here, we recon ...

    The nuclear RNA exosome complex mediates the processing of structured RNAs and the decay of aberrant non-coding RNAs, an important function particularly in human cells. Most mechanistic studies to date have focused on the yeast system. Here, we reconstituted and studied the properties of a recombinant 14-subunit human nuclear exosome complex. In biochemical assays, the human exosome embeds a longer RNA channel than its yeast counterpart. The 3.8 Å resolution cryo-EM structure of the core complex bound to a single-stranded RNA reveals that the RNA channel path is formed by two distinct features of the hDIS3 exoribonuclease: an open conformation and a domain organization more similar to bacterial RNase II than to yeast Rrp44. The cryo-EM structure of the holo-complex shows how obligate nuclear cofactors position the hMTR4 helicase at the entrance of the core complex, suggesting a striking structural conservation from lower to higher eukaryotes.


    Organizational Affiliation

    Department of Structural Cell Biology, Max Planck Institute of Biochemistry, Munich, Germany.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Exosome complex component RRP45A443Homo sapiensMutation(s): 0 
Gene Names: EXOSC9PMSCL1
Find proteins for Q06265 (Homo sapiens)
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PHAROS  Q06265
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Exosome complex component RRP41B249Homo sapiensMutation(s): 0 
Gene Names: EXOSC4RRP41SKI6
Find proteins for Q9NPD3 (Homo sapiens)
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PHAROS  Q9NPD3
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Exosome complex component RRP43C278Homo sapiensMutation(s): 0 
Gene Names: EXOSC8OIP2RRP43
Find proteins for Q96B26 (Homo sapiens)
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PHAROS  Q96B26
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Exosome complex component RRP46D237Homo sapiensMutation(s): 0 
Gene Names: EXOSC5CML28RRP46
Find proteins for Q9NQT4 (Homo sapiens)
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PHAROS  Q9NQT4
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
Exosome complex component RRP42E295Homo sapiensMutation(s): 0 
Gene Names: EXOSC7KIAA0116RRP42
Find proteins for Q15024 (Homo sapiens)
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PHAROS  Q15024
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
Exosome complex component MTR3F276Homo sapiensMutation(s): 0 
Gene Names: EXOSC6MTR3
Find proteins for Q5RKV6 (Homo sapiens)
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PHAROS  Q5RKV6
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Exosome complex component RRP40G293Homo sapiensMutation(s): 0 
Gene Names: EXOSC3RRP40CGI-102
Find proteins for Q9NQT5 (Homo sapiens)
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PHAROS  Q9NQT5
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
Exosome complex component RRP4H297Homo sapiensMutation(s): 0 
Gene Names: EXOSC2RRP4
Find proteins for Q13868 (Homo sapiens)
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PHAROS  Q13868
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
Exosome complex component CSL4I199Homo sapiensMutation(s): 0 
Gene Names: EXOSC1CSL4CGI-108
Find proteins for Q9Y3B2 (Homo sapiens)
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PHAROS  Q9Y3B2
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Exosome complex exonuclease RRP44J962Homo sapiensMutation(s): 2 
Gene Names: DIS3KIAA1008RRP44
EC: 3.1.13 (PDB Primary Data), 3.1.26 (PDB Primary Data)
Find proteins for Q9Y2L1 (Homo sapiens)
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
M-phase phosphoprotein 6K166Homo sapiensMutation(s): 0 
Gene Names: MPHOSPH6MPP6
Find proteins for Q99547 (Homo sapiens)
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PHAROS  Q99547
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Entity ID: 12
MoleculeChainsLengthOrganismImage
U44 ssRNAR44synthetic construct
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Molecular Biology OrganizationALTF 1008-2015
European CommissionERC-2016-ADG 740329 EXORICO
German Research FoundationSFB646, SFB1035, GRK1721
Louis-Jeantet Foundation--
Max Planck Society--

Revision History 

  • Version 1.0: 2018-08-15
    Type: Initial release
  • Version 1.1: 2019-02-20
    Changes: Advisory, Data collection, Derived calculations