4RIK

Amyloid forming segment, AVVTGVTAV, from the NAC domain of Parkinson's disease protein alpha-synuclein, residues 69-77


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.854 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.176 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structure of the toxic core of alpha-synuclein from invisible crystals.

Rodriguez, J.A.Ivanova, M.I.Sawaya, M.R.Cascio, D.Reyes, F.E.Shi, D.Sangwan, S.Guenther, E.L.Johnson, L.M.Zhang, M.Jiang, L.Arbing, M.A.Nannenga, B.L.Hattne, J.Whitelegge, J.Brewster, A.S.Messerschmidt, M.Boutet, S.Sauter, N.K.Gonen, T.Eisenberg, D.S.

(2015) Nature 525: 486-490

  • DOI: 10.1038/nature15368
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The protein α-synuclein is the main component of Lewy bodies, the neuron-associated aggregates seen in Parkinson disease and other neurodegenerative pathologies. An 11-residue segment, which we term NACore, appears to be responsible for amyloid forma ...

    The protein α-synuclein is the main component of Lewy bodies, the neuron-associated aggregates seen in Parkinson disease and other neurodegenerative pathologies. An 11-residue segment, which we term NACore, appears to be responsible for amyloid formation and cytotoxicity of human α-synuclein. Here we describe crystals of NACore that have dimensions smaller than the wavelength of visible light and thus are invisible by optical microscopy. As the crystals are thousands of times too small for structure determination by synchrotron X-ray diffraction, we use micro-electron diffraction to determine the structure at atomic resolution. The 1.4 Å resolution structure demonstrates that this method can determine previously unknown protein structures and here yields, to our knowledge, the highest resolution achieved by any cryo-electron microscopy method to date. The structure exhibits protofibrils built of pairs of face-to-face β-sheets. X-ray fibre diffraction patterns show the similarity of NACore to toxic fibrils of full-length α-synuclein. The NACore structure, together with that of a second segment, inspires a model for most of the ordered portion of the toxic, full-length α-synuclein fibril, presenting opportunities for the design of inhibitors of α-synuclein fibrils.


    Organizational Affiliation

    Howard Hughes Medical Institute, UCLA-DOE Institute, Departments of Biological Chemistry and Chemistry and Biochemistry, Box 951570, UCLA, Los Angeles, California 90095-1570, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Alpha-synuclein
A
9Homo sapiensMutation(s): 0 
Gene Names: SNCA (NACP, PARK1)
Find proteins for P37840 (Homo sapiens)
Go to Gene View: SNCA
Go to UniProtKB:  P37840
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.854 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.176 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 61.864α = 90.00
b = 4.799β = 104.13
c = 17.263γ = 90.00
Software Package:
Software NamePurpose
SCALEPACKdata scaling
PHASERphasing
DENZOdata reduction
REFMACrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2015-08-26
    Type: Initial release
  • Version 1.1: 2015-09-09
    Type: Database references
  • Version 1.2: 2015-09-23
    Type: Database references
  • Version 1.3: 2015-10-07
    Type: Database references