9UNL | pdb_00009unl

Cryo-EM structure of the human prohibitin complex


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 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

Cryo-EM structure of the prohibitin complex in open conformation.

Hong, S.Guan, Z.Zhang, L.Zhuang, J.Yan, L.Liu, Y.Liu, Z.Wang, Q.Yin, P.

(2025) Proc Natl Acad Sci U S A 122: e2512430122-e2512430122

  • DOI: https://doi.org/10.1073/pnas.2512430122
  • Primary Citation Related Structures: 
    9UNL

  • PubMed Abstract: 

    Prohibitin 1 (PHB1) and Prohibitin 2 (PHB2), two conserved prohibitin members, are primarily localized to the mitochondrial inner membrane (MIM) to form a nanoscale macromolecular prohibitin complex. This prohibitin complex can facilitate the spatial organization of proteins and lipids, thus maintaining cellular metabolism and homeostasis, but its architecture remains largely unknown. Here, we report the cryo-EM structure of a prohibitin complex at 2.8 Å resolution, which contains 11 PHB1-PHB2 heterodimers. This complex displays a bell-like cage, consisting of a lid and a wall, which creates an intermembrane space-facing compartment for the MIM. The lid of the cage is stably assembled, and it is responsible for the prohibitin complex formation. In contrast, the wall of the cage is flexible and exhibits lateral openings, providing a channel for intramembrane exchange of proteins and lipids. These findings provide a structural basis for understanding the scaffold role of the prohibitin complex in organizing intramembrane proteins and lipids.


  • Organizational Affiliation
    • National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan 430070, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Prohibitin 1296Homo sapiensMutation(s): 0 
Gene Names: PHB1PHB
UniProt & NIH Common Fund Data Resources
Find proteins for P35232 (Homo sapiens)
Explore P35232 
Go to UniProtKB:  P35232
PHAROS:  P35232
GTEx:  ENSG00000167085 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP35232
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Prohibitin-2299Homo sapiensMutation(s): 0 
Gene Names: PHB2BAPREA
UniProt & NIH Common Fund Data Resources
Find proteins for Q99623 (Homo sapiens)
Explore Q99623 
Go to UniProtKB:  Q99623
PHAROS:  Q99623
GTEx:  ENSG00000215021 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ99623
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.80 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.21.1_5286

Structure Validation

View Full Validation Report



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: 2025-09-10
    Type: Initial release
  • Version 1.1: 2025-09-17
    Changes: Data collection, Database references, Structure summary
  • Version 1.2: 2026-03-25
    Changes: Data collection, Database references