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- EMDB-3744: Pronase-treated straight filament in Alzheimer's disease brain -

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Basic information

Database: EMDB / ID: 3744
TitlePronase-treated straight filament in Alzheimer's disease brain
Map data
Methodhelical reconstruction / cryo EM / 4.9 Å resolution
AuthorsFitzpatrick AWP / Falcon B / He S / Murzin AG / Murshudov G / Garringer HG / Crowther RA / Ghetti B / Goedert M / Scheres SHW
CitationJournal: Nature / Year: 2017
Title: Cryo-EM structures of tau filaments from Alzheimer's disease.
Authors: Anthony W P Fitzpatrick / Benjamin Falcon / Shaoda He / Alexey G Murzin / Garib Murshudov / Holly J Garringer / R Anthony Crowther / Bernardino Ghetti / Michel Goedert / Sjors H W Scheres
DateDeposition: May 25, 2017 / Header (metadata) release: Jul 26, 2017 / Map release: Jul 26, 2017 / Last update: Aug 2, 2017

Structure visualization

  • Surface view with section colored by density value
  • Surface level: 0.012
  • Imaged by UCSF Chimera
  • Download
  • Surface view colored by cylindrical radius
  • Surface level: 0.012
  • Imaged by UCSF Chimera
  • Download
Movie viewer
Structure viewerEM map:
Supplemental images

Downloads & links


Fileemd_3744.map.gz (map file in CCP4 format, 78733 KB)
Projections & slices

Image control

AxesZ (Sec.)Y (Row.)X (Col.)
270 pix
1.15 Å/pix.
= 310.5 Å
270 pix
1.15 Å/pix.
= 310.5 Å
270 pix
1.15 Å/pix.
= 310.5 Å



Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.15 Å
Contour Level:0.012 (by author), 0.012 (movie #1):
Minimum - Maximum-0.011788864 - 0.046356678
Average (Standard dev.)0.00036828752 (0.0024246783)


Space Group Number1
Map Geometry
Axis orderXYZ
CellA=B=C: 310.5 Å
α=β=γ: 90 deg.

CCP4 map header:

modeImage stored as Reals
Å/pix. X/Y/Z1.151.151.15
M x/y/z270270270
origin x/y/z0.0000.0000.000
length x/y/z310.500310.500310.500
start NX/NY/NZ
MAP C/R/S123
start NC/NR/NS000
D min/max/mean-0.0120.0460.000

Supplemental data

Sample components

Entire Tau

EntireName: Tau / Number of components: 2

Component #2: protein, Tau

ProteinName: Tau / Recombinant expression: No

Experimental details

Sample preparation

SpecimenSpecimen state: tissue / Method: cryo EM
Helical parametersAxial symmetry: C1 (asymmetric) / Delta z: 4.78 Å / Delta phi: -1.01 deg.
Sample solutionSpecimen conc.: 1 mg/ml
Buffer solution: 20 mM Tris-HCl pH 7.4 containing 100 MM NaCl
pH: 7.4
VitrificationInstrument: FEI VITROBOT MARK IV / Cryogen name: ETHANE / Temperature: 277.15 K / Humidity: 100 %

Electron microscopy imaging

Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company
ImagingMicroscope: FEI TITAN KRIOS
Electron gunElectron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Electron dose: 2.5 e/Å2 / Illumination mode: FLOOD BEAM
LensCs: 2.7 mm / Imaging mode: BRIGHT FIELD / Defocus: 900 - 3000 nm / Energy filter: GIF Quantum / Energy window: -10-10 eV
CameraDetector: GATAN K2 QUANTUM (4k x 4k)

Image acquisition

Image acquisitionNumber of digital images: 523
Details: images were collected in movie-mode at 1.2 frames per second

Image processing

ProcessingMethod: helical reconstruction
3D reconstructionResolution: 4.9 Å / Resolution method: FSC 0.143 CUT-OFF
FSC plot
(resolution estimation)

Atomic model buiding

Modeling #1Refinement protocol: flexible / Target criteria: Fourier shell correlation / Refinement space: RECIPROCAL
Details: Fourier-space refinement of the complete atomic model against the paired helical filament and straight filament maps was performed in REFMAC. A stack of three consecutive monomers from each of the protofilaments was refined to preserve nearest-neighbour interactions for the middle chain.
Input PDB model: 2RNM
Chain ID: 2RNM_A

Overall bvalue: 79

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