8K9I

Structure of CUL3-RBX1-KLHL22 complex without CUL3 NA motif


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

A conserved N-terminal motif of CUL3 contributes to assembly and E3 ligase activity of CRL3 KLHL22.

Wang, W.Liang, L.Dai, Z.Zuo, P.Yu, S.Lu, Y.Ding, D.Chen, H.Shan, H.Jin, Y.Mao, Y.Yin, Y.

(2024) Nat Commun 15: 3789-3789

  • DOI: https://doi.org/10.1038/s41467-024-48045-2
  • Primary Citation of Related Structures:  
    8K8T, 8K9I

  • PubMed Abstract: 

    The CUL3-RING E3 ubiquitin ligases (CRL3s) play an essential role in response to extracellular nutrition and stress stimuli. The ubiquitin ligase function of CRL3s is activated through dimerization. However, how and why such a dimeric assembly is required for its ligase activity remains elusive. Here, we report the cryo-EM structure of the dimeric CRL3 KLHL22 complex and reveal a conserved N-terminal motif in CUL3 that contributes to the dimerization assembly and the E3 ligase activity of CRL3 KLHL22 . We show that deletion of the CUL3 N-terminal motif impairs dimeric assembly and the E3 ligase activity of both CRL3 KLHL22 and several other CRL3s. In addition, we found that the dynamics of dimeric assembly of CRL3 KLHL22 generates a variable ubiquitination zone, potentially facilitating substrate recognition and ubiquitination. These findings demonstrate that a CUL3 N-terminal motif participates in the assembly process and provide insights into the assembly and activation of CRL3s.


  • Organizational Affiliation

    Institute of Precision Medicine, Peking University Shenzhen Hospital, Shenzhen, 518036, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Cullin-3A [auth C]752Homo sapiensMutation(s): 0 
Gene Names: CUL3
UniProt & NIH Common Fund Data Resources
Find proteins for Q13618 (Homo sapiens)
Explore Q13618 
Go to UniProtKB:  Q13618
PHAROS:  Q13618
GTEx:  ENSG00000036257 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13618
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Kelch-like protein 22B [auth K],
C [auth L]
178Homo sapiensMutation(s): 0 
Gene Names: KLHL22
UniProt & NIH Common Fund Data Resources
Find proteins for Q53GT1 (Homo sapiens)
Explore Q53GT1 
Go to UniProtKB:  Q53GT1
PHAROS:  Q53GT1
GTEx:  ENSG00000099910 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ53GT1
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase RBX1, N-terminally processedD [auth R]108Homo sapiensMutation(s): 0 
Gene Names: RBX1RNF75ROC1
UniProt & NIH Common Fund Data Resources
Find proteins for P62877 (Homo sapiens)
Explore P62877 
Go to UniProtKB:  P62877
PHAROS:  P62877
GTEx:  ENSG00000100387 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP62877
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC4.2

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China2021YFA1300601
National Natural Science Foundation of China (NSFC)China82030081
National Natural Science Foundation of China (NSFC)China81874235
National Natural Science Foundation of China (NSFC)China31800626

Revision History  (Full details and data files)

  • Version 1.0: 2024-05-29
    Type: Initial release