9C4E | pdb_00009c4e

Structure of endogenous DPYSL2 from rat model of Alzheimer's disease


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.73 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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Literature

Unveiling the structural proteome of an Alzheimer's disease rat brain model.

Samani, E.K.Hasan, S.M.N.Waas, M.Keszei, A.F.A.Xu, X.Heydari, M.Hill, M.E.McLaurin, J.Kislinger, T.Mazhab-Jafari, M.T.

(2025) Structure 33: 51

  • DOI: https://doi.org/10.1016/j.str.2024.11.004
  • Primary Citation of Related Structures:  
    9C21, 9C28, 9C4E, 9C86

  • PubMed Abstract: 

    Studying native protein structures at near-atomic resolution in a crowded environment presents challenges. Consequently, understanding the structural intricacies of proteins within pathologically affected tissues often relies on mass spectrometry and proteomic analysis. Here, we utilized cryoelectron microscopy (cryo-EM) and the Build and Retrieve (BaR) method to investigate protein complexes' structural characteristics such as post-translational modification, active site occupancy, and arrested conformational state in Alzheimer's disease (AD) using brain lysate from a rat model (TgF344-AD). Our findings reveal novel insights into the architecture of these complexes, corroborated through mass spectrometry analysis. Interestingly, it has been shown that the dysfunction of these protein complexes extends beyond AD, implicating them in cancer, as well as other neurodegenerative disorders such as Parkinson's disease, Huntington's disease, and schizophrenia. By elucidating these structural details, our work not only enhances our understanding of disease pathology but also suggests new avenues for future approaches in therapeutic intervention.


  • Organizational Affiliation
    • Department of Medical Biophysics, University of Toronto, Toronto, Ontario, Canada.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Dihydropyrimidinase-related protein 2
A, B, C, D
572Rattus norvegicusMutation(s): 0 
UniProt
Find proteins for P47942 (Rattus norvegicus)
Explore P47942 
Go to UniProtKB:  P47942
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP47942
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.73 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC
MODEL REFINEMENTPHENIX

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canadian Institutes of Health Research (CIHR)Canada419240

Revision History  (Full details and data files)

  • Version 1.0: 2024-12-11
    Type: Initial release
  • Version 1.1: 2025-01-15
    Changes: Data collection, Database references