9IJP | pdb_00009ijp

Polyphosphate bound alpha-synuclein fibril

• PDB DOI: https://doi.org/10.2210/pdb9IJP/pdb
• EM Map EMD-60637: EMDB EMDataResource

• Classification: PROTEIN FIBRIL
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2024-06-25 Released: 2024-07-17 
• Deposition Author(s): Tao, Y.Q., Liu, C., Li, D.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.10 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

Literature

Polyphosphate bound alpha-synuclein fibril

Tao, Y.Q., Liu, C., Li, D.

To be published.

Biological Assembly 1  

Global Symmetry: Helical - H  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 assigned by authors and generated by (software)

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 88.88 kDa 
• Atom Count: 2,730 
• Modeled Residue Count: 378 
• Deposited Residue Count: 840 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-synuclein	A [auth C], B [auth G], C [auth I], D [auth L], E, F [auth B]	140	Homo sapiens	Mutation(s): 0  Gene Names: SNCA, NACP, PARK1
UniProt & NIH Common Fund Data Resources
Find proteins for P37840 (Homo sapiens) Explore P37840  Go to UniProtKB:  P37840
PHAROS:  P37840 GTEx:  ENSG00000145335

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
7TT (Subject of Investigation/LOI)	G [auth C], H [auth C], I [auth C], J [auth L], K [auth L], L	Tetraphosphate H6 O13 P4 YDHWWBZFRZWVHO-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.10 Å
• Aggregation State: FILAMENT 
• Reconstruction Method: HELICAL 

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-17 
Deposition Author(s): Tao, Y.Q., Liu, C., Li, D.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2024-07-17
  Type: Initial release
  
• Version 1.1: 2025-06-18
  Changes: Data collection, Structure summary