8AX9

Human Apolipoprotein E4 (ApoE4) N-terminal domain (space group P212121)

• PDB DOI: https://doi.org/10.2210/pdb8AX9/pdb

• Classification: LIPID BINDING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2022-08-31 Released: 2023-08-30 
• Deposition Author(s): Nemergut, M., Marek, M.
• Funding Organization(s): Czech Science Foundation

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.195 
• R-Value Work: 0.184 
• R-Value Observed: 0.185 

Literature

Domino-like effect of C112R mutation on ApoE4 aggregation and its reduction by Alzheimer's Disease drug candidate.

Nemergut, M., Marques, S.M., Uhrik, L., Vanova, T., Nezvedova, M., Gadara, D.C., Jha, D., Tulis, J., Novakova, V., Planas-Iglesias, J., Kunka, A., Legrand, A., Hribkova, H., Pospisilova, V., Sedmik, J., Raska, J., Prokop, Z., Damborsky, J., Bohaciakova, D., Spacil, Z., Hernychova, L., Bednar, D., Marek, M.

(2023) Mol Neurodegener 18: 38-38

• PubMed: 37280636 
• DOI: https://doi.org/10.1186/s13024-023-00620-9
• Primary Citation of Related Structures:  
  8AX8, 8AX9, 8CDY, 8CE0


• PubMed Abstract: 
  

  Apolipoprotein E (ApoE) ε4 genotype is the most prevalent risk factor for late-onset Alzheimer's Disease (AD). Although ApoE4 differs from its non-pathological ApoE3 isoform only by the C112R mutation, the molecular mechanism of its proteinopathy is unknown.

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Organizational Affiliation: 

Loschmidt Laboratories, Department of Experimental Biology, Faculty of Science, Masaryk University, Kamenice 5, Brno, 625 00, Czech Republic.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 75.12 kDa 
• Atom Count: 1,402 
• Modelled Residue Count: 143 
• Deposited Residue Count: 675 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Maltose/maltodextrin-binding periplasmic protein,Apolipoprotein E	A	675	Homo sapiens	Mutation(s): 15  Gene Names: malE, b4034, JW3994, APOE
UniProt & NIH Common Fund Data Resources
Find proteins for P0AEX9 (Escherichia coli (strain K12)) Explore P0AEX9  Go to UniProtKB:  P0AEX9
Find proteins for P02649 (Homo sapiens) Explore P02649  Go to UniProtKB:  P02649
PHAROS:  P02649 GTEx:  ENSG00000130203
UniProt Groups	P02649P0AEX9

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.55 Å
• R-Value Free: 0.195 
• R-Value Work: 0.184 
• R-Value Observed: 0.185 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 45.593	α = 90
b = 53.175	β = 90
c = 73.92	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
PHASER	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-08-30 
Deposition Author(s): Nemergut, M., Marek, M.

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Funding Organization	Location	Grant Number
Czech Science Foundation	Czech Republic	GA22-09853S

Revision History  

• Version 1.0: 2023-08-30
  Type: Initial release
  
• Version 1.1: 2024-03-13
  Changes: Database references