9J78 | pdb_00009j78

Cryo-EM structure of CRL2-FEM1B (dimer 2)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.88 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

TOM20-driven E3 ligase recruitment regulates mitochondrial dynamics through PLD6.

Raiff, A.Zhao, S.Bekturova, A.Zenge, C.Mazor, S.Chen, X.Ru, W.Makaros, Y.Ast, T.Ordureau, A.Xu, C.Koren, I.

(2025) Nat Chem Biol 

  • DOI: https://doi.org/10.1038/s41589-025-01894-4
  • Primary Citation of Related Structures:  
    9J77, 9J78, 9J79, 9J7A, 9J7B, 9JCE, 9LKX, 9LKY

  • PubMed Abstract: 

    Mitochondrial homeostasis is maintained through complex regulatory mechanisms, including the balance of mitochondrial dynamics involving fusion and fission processes. A central player in this regulation is the ubiquitin-proteasome system (UPS), which controls the degradation of pivotal mitochondrial proteins. In this study, we identified cullin-RING E3 ligase 2 (CRL2) and its substrate receptor, FEM1B, as critical regulators of mitochondrial dynamics. Through proteomic analysis, we demonstrate here that FEM1B controls the turnover of PLD6, a key regulator of mitochondrial dynamics. Using structural and biochemical approaches, we show that FEM1B physically interacts with PLD6 and that this interaction is facilitated by the direct association of FEM1B with the mitochondrial import receptor TOM20. Ablation of FEM1B or disruption of the FEM1B-TOM20 interaction impairs PLD6 degradation and induces mitochondrial defects, phenocopying PLD6 overexpression. These findings underscore the importance of FEM1B in maintaining mitochondrial morphology and provide further mechanistic insights into how the UPS regulates mitochondrial homeostasis.


  • Organizational Affiliation

    Mina and Everard Goodman Faculty of Life Sciences, Bar-Ilan University, Ramat-Gan, Israel.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Elongin-BA [auth H],
D
121Homo sapiensMutation(s): 0 
Gene Names: ELOBTCEB2
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Find proteins for Q15370 (Homo sapiens)
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PHAROS:  Q15370
GTEx:  ENSG00000103363 
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UniProt GroupQ15370
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Cullin-2B,
G [auth A]
750Homo sapiensMutation(s): 0 
Gene Names: CUL2
UniProt & NIH Common Fund Data Resources
Find proteins for Q13617 (Homo sapiens)
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PHAROS:  Q13617
GTEx:  ENSG00000108094 
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UniProt GroupQ13617
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Elongin-CC,
H [auth G]
96Homo sapiensMutation(s): 0 
Gene Names: ELOCTCEB1
UniProt & NIH Common Fund Data Resources
Find proteins for Q15369 (Homo sapiens)
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PHAROS:  Q15369
GTEx:  ENSG00000154582 
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UniProt GroupQ15369
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Protein fem-1 homolog BE [auth J],
F
627Homo sapiensMutation(s): 0 
Gene Names: FEM1BF1AAKIAA0396
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Find proteins for Q9UK73 (Homo sapiens)
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PHAROS:  Q9UK73
GTEx:  ENSG00000169018 
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UniProt GroupQ9UK73
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase RBX1, N-terminally processedI [auth E],
J [auth I]
96Homo sapiensMutation(s): 0 
Gene Names: RBX1RNF75ROC1
EC: 2.3.2.32 (UniProt), 2.3.2.27 (UniProt)
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Find proteins for P62877 (Homo sapiens)
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PHAROS:  P62877
GTEx:  ENSG00000100387 
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UniProt GroupP62877
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Poly-UNK9Homo sapiensMutation(s): 0 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Poly-UNK8Homo sapiensMutation(s): 0 
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.88 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China--

Revision History  (Full details and data files)

  • Version 1.0: 2025-04-09
    Type: Initial release
  • Version 1.1: 2025-04-30
    Changes: Data collection, Database references
  • Version 1.2: 2025-05-07
    Changes: Data collection, Database references