6R7H

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


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.80 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

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
  • Structures With Same Primary Citation

  • 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 dened ...

    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 LengthOrganismDetails
COP9 signalosome complex subunit 1
A
433Homo sapiensMutation(s): 0 
Gene Names: GPS1COPS1CSN1
Find proteins for Q13098 (Homo sapiens)
Go to UniProtKB:  Q13098
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PHAROS  Q13098

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Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
COP9 signalosome complex subunit 7b
G
208Homo sapiensMutation(s): 0 
Gene Names: COPS7BCSN7B
Find proteins for Q9H9Q2 (Homo sapiens)
Go to UniProtKB:  Q9H9Q2
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PHAROS  Q9H9Q2

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Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
COP9 signalosome complex subunit 8
H
199Homo sapiensMutation(s): 0 
Gene Names: COPS8CSN8
Find proteins for Q99627 (Homo sapiens)
Go to UniProtKB:  Q99627
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PHAROS  Q99627

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Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
Elongin-B
P
104Homo sapiensMutation(s): 0 
Gene Names: ELOBTCEB2
Find proteins for Q15370 (Homo sapiens)
Go to UniProtKB:  Q15370
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PHAROS  Q15370

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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Elongin-C
Q
112Homo sapiensMutation(s): 0 
Gene Names: ELOCTCEB1
Find proteins for Q15369 (Homo sapiens)
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PHAROS  Q15369

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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Cullin-2
O
654Homo sapiensMutation(s): 0 
Gene Names: CUL2
Find proteins for Q13617 (Homo sapiens)
Go to UniProtKB:  Q13617
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PHAROS  Q13617

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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
E3 ubiquitin-protein ligase RBX1
R
90Homo sapiensMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.

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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
COP9 signalosome complex subunit 2
B
414Homo sapiensMutation(s): 0 
Gene Names: COPS2CSN2TRIP15
Find proteins for P61201 (Homo sapiens)
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PHAROS  P61201

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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
COP9 signalosome complex subunit 3
C
403Homo sapiensMutation(s): 0 
Gene Names: COPS3CSN3
Find proteins for Q9UNS2 (Homo sapiens)
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PHAROS  Q9UNS2

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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
COP9 signalosome complex subunit 4
D
406Homo sapiensMutation(s): 0 
Gene Names: COPS4CSN4
Find proteins for Q9BT78 (Homo sapiens)
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PHAROS  Q9BT78

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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
COP9 signalosome complex subunit 5
E
311Homo sapiensMutation(s): 0 
Gene Names: COPS5CSN5JAB1
EC: 3.4
Find proteins for Q92905 (Homo sapiens)
Go to UniProtKB:  Q92905
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PHAROS  Q92905

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Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
COP9 signalosome complex subunit 6
F
288Homo sapiensMutation(s): 0 
Gene Names: COPS6CSN6HVIP
Find proteins for Q7L5N1 (Homo sapiens)
Go to UniProtKB:  Q7L5N1
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PHAROS  Q7L5N1
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



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