7UPE | pdb_00007upe

Tau Paired Helical Filament from Alzheimer's Disease not incubated with EGCG

• PDB DOI: https://doi.org/10.2210/pdb7UPE/pdb
• EM Map EMD-26663: EMDB EMDataResource

• Classification: PROTEIN FIBRIL
• Organism(s): Homo sapiens
• Mutation(s): No 


• Deposited: 2022-04-15 Released: 2022-09-28 
• Deposition Author(s): Seidler, P.M., Murray, K.A., Boyer, D.R., Ge, P., Sawaya, M.R., Eisenberg, D.S.
• Funding Organization(s): National Institutes of Health/National Institute on Aging (NIH/NIA), National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.40 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: HELICAL 

Starting Model: experimental

Literature

Structure-based discovery of small molecules that disaggregate Alzheimer's disease tissue derived tau fibrils in vitro.

Seidler, P.M., Murray, K.A., Boyer, D.R., Ge, P., Sawaya, M.R., Hu, C.J., Cheng, X., Abskharon, R., Pan, H., DeTure, M.A., Williams, C.K., Dickson, D.W., Vinters, H.V., Eisenberg, D.S.

(2022) Nat Commun 13: 5451-5451

• PubMed: 36114178 
• DOI: https://doi.org/10.1038/s41467-022-32951-4
• Primary Citation Related Structures: 
  7UPE, 7UPF, 7UPG


• PubMed Abstract: 
  

  Alzheimer's disease (AD) is the consequence of neuronal death and brain atrophy associated with the aggregation of protein tau into fibrils. Thus disaggregation of tau fibrils could be a therapeutic approach to AD. The small molecule EGCG, abundant in green tea, has long been known to disaggregate tau and other amyloid fibrils, but EGCG has poor drug-like properties, failing to fully penetrate the brain. Here we have cryogenically trapped an intermediate of brain-extracted tau fibrils on the kinetic pathway to EGCG-induced disaggregation and have determined its cryoEM structure. The structure reveals that EGCG molecules stack in polar clefts between the paired helical protofilaments that pathologically define AD. Treating the EGCG binding position as a pharmacophore, we computationally screened thousands of drug-like compounds for compatibility for the pharmacophore, discovering several that experimentally disaggregate brain-derived tau fibrils in vitro. This work suggests the potential of structure-based, small-molecule drug discovery for amyloid diseases.

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Organizational Affiliation: 
• Department of Chemistry and Biochemistry, UCLA, Los Angeles, CA, USA.
Department of Biological Chemistry, UCLA, Los Angeles, CA, USA.
UCLA-DOE Institute, Los Angeles, CA, USA.
Molecular Biology Institute, UCLA, Los Angeles, CA, USA.
Howard Hughes Medical Institute, Los Angeles, CA, USA.
Department of Pharmacology and Pharmaceutical Sciences, University of Southern California, Los Angeles, CA, USA.
Department of Neuroscience, Mayo Clinic, Jacksonville, FL, USA.
Department of Pathology and Laboratory Medicine, David Geffen School of Medicine, UCLA, Los Angeles, CA, USA.
Department of Neurology, David Geffen School of Medicine, UCLA, Los Angeles, CA, USA.
Department of Chemistry and Biochemistry, UCLA, Los Angeles, CA, USA. [e-mail].
Department of Biological Chemistry, UCLA, Los Angeles, CA, USA. [e-mail].
UCLA-DOE Institute, Los Angeles, CA, USA. [e-mail].
Molecular Biology Institute, UCLA, Los Angeles, CA, USA. [e-mail].
Howard Hughes Medical Institute, Los Angeles, CA, USA. [e-mail].

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 10-mer - A10 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 459.2 kDa 
• Atom Count: 5,680 
• Modeled Residue Count: 740 
• Deposited Residue Count: 4,410 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform Tau-F of Microtubule-associated protein tau	A, B, C, D, E, F, G, H, I, J	441	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for P10636 (Homo sapiens) Explore P10636  Go to UniProtKB:  P10636
PHAROS:  P10636 GTEx:  ENSG00000186868

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.40 Å
• Aggregation State: HELICAL ARRAY 
• Reconstruction Method: HELICAL 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	RELION
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2022-09-28 
Deposition Author(s): Seidler, P.M., Murray, K.A., Boyer, D.R., Ge, P., Sawaya, M.R., Eisenberg, D.S.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute on Aging (NIH/NIA)	United States	1R01 AG029430
National Institutes of Health/National Institute on Aging (NIH/NIA)	United States	AG061847
National Institutes of Health/National Institute on Aging (NIH/NIA)	United States	RF1 AG054022
National Institutes of Health/National Institute of Neurological Disorders and Stroke (NIH/NINDS)	United States	1F32 NS095661

Revision History  

• Version 1.0: 2022-09-28
  Type: Initial release
  
• Version 1.1: 2024-06-12
  Changes: Data collection, Refinement description