6R7F

Structural basis of Cullin-2 RING E3 ligase regulation by the COP9 signalosome


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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This is version 1.2 of the entry. See complete history


Literature

Structural basis of Cullin 2 RING E3 ligase regulation by the COP9 signalosome.

Faull, S.V.Lau, A.M.C.Martens, C.Ahdash, Z.Hansen, K.Yebenes, H.Schmidt, C.Beuron, F.Cronin, N.B.Morris, E.P.Politis, A.

(2019) Nat Commun 10: 3814-3814

  • DOI: 10.1038/s41467-019-11772-y
  • Primary Citation of Related Structures:  
    6R6H, 6R7N, 6R7F, 6R7H, 6R7I

  • PubMed Abstract: 
  • Cullin-Ring E3 Ligases (CRLs) regulate a multitude of cellular pathways through specific substrate receptors. The COP9 signalosome (CSN) deactivates CRLs by removing NEDD8 from activated Cullins. Here we present structures of the neddylated and deneddyla ...

    Cullin-Ring E3 Ligases (CRLs) regulate a multitude of cellular pathways through specific substrate receptors. The COP9 signalosome (CSN) deactivates CRLs by removing NEDD8 from activated Cullins. Here we present structures of the neddylated and deneddylated CSN-CRL2 complexes by combining single-particle cryo-electron microscopy (cryo-EM) with chemical cross-linking mass spectrometry (XL-MS). These structures suggest a conserved mechanism of CSN activation, consisting of conformational clamping of the CRL2 substrate by CSN2/CSN4, release of the catalytic CSN5/CSN6 heterodimer and finally activation of the CSN5 deneddylation machinery. Using hydrogen-deuterium exchange (HDX)-MS we show that CRL2 activates CSN5/CSN6 in a neddylation-independent manner. The presence of NEDD8 is required to activate the CSN5 active site. Overall, by synergising cryo-EM with MS, we identify sensory regions of the CSN that mediate its stepwise activation and provide a framework for understanding the regulatory mechanism of other Cullin family members.


    Organizational Affiliation

    Department of Chemistry, King's College London, 7 Trinity Street, London, SE1 1DB, UK. argyris.politis@kcl.ac.uk.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
COP9 signalosome complex subunit 1 A433Homo sapiensMutation(s): 0 
Gene Names: GPS1COPS1CSN1
Find proteins for Q13098 (Homo sapiens)
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
COP9 signalosome complex subunit 2 B443Homo sapiensMutation(s): 0 
Gene Names: COPS2CSN2TRIP15
Find proteins for P61201 (Homo sapiens)
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PHAROS:  P61201
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
COP9 signalosome complex subunit 3 C403Homo sapiensMutation(s): 0 
Gene Names: COPS3CSN3
Find proteins for Q9UNS2 (Homo sapiens)
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PHAROS:  Q9UNS2
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
COP9 signalosome complex subunit 4 D406Homo sapiensMutation(s): 0 
Gene Names: COPS4CSN4
Find proteins for Q9BT78 (Homo sapiens)
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
COP9 signalosome complex subunit 5 E311Homo sapiensMutation(s): 0 
Gene Names: COPS5CSN5JAB1
EC: 3.4
Find proteins for Q92905 (Homo sapiens)
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
COP9 signalosome complex subunit 6 F288Homo sapiensMutation(s): 0 
Gene Names: COPS6CSN6HVIP
Find proteins for Q7L5N1 (Homo sapiens)
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
COP9 signalosome complex subunit 8 H209Homo sapiensMutation(s): 0 
Gene Names: COPS8CSN8
Find proteins for Q99627 (Homo sapiens)
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
COP9 signalosome complex subunit 7b G208Homo sapiensMutation(s): 0 
Gene Names: COPS7BCSN7B
Find proteins for Q9H9Q2 (Homo sapiens)
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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetailsImage
von Hippel-Lindau disease tumor suppressor V160Homo sapiensMutation(s): 0 
Gene Names: VHL
Find proteins for P40337 (Homo sapiens)
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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetailsImage
Elongin-B P118Homo sapiensMutation(s): 0 
Gene Names: ELOBTCEB2
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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetailsImage
Elongin-C Q112Homo sapiensMutation(s): 0 
Gene Names: ELOCTCEB1
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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetailsImage
Cullin-2 O745Homo sapiensMutation(s): 0 
Gene Names: CUL2
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Entity ID: 13
MoleculeChainsSequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase RBX1 R90Homo sapiensMutation(s): 0 
Gene Names: RBX1RNF75ROC1
EC: 2.3.2.27 (UniProt), 2.3.2.32 (UniProt)
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Entity ID: 14
MoleculeChainsSequence LengthOrganismDetailsImage
NEDD8 N76Homo sapiensMutation(s): 0 
Gene Names: NEDD8
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Cancer Research UKUnited Kingdom--

Revision History 

  • Version 1.0: 2019-08-28
    Type: Initial release
  • Version 1.1: 2019-09-04
    Changes: Data collection, Database references
  • Version 1.2: 2019-10-09
    Changes: Advisory, Data collection, Derived calculations