EMD-7115

Helical reconstruction
5.5 Å
EMD-7115
3D View Gallery
Deposition: 17/11/2017
Map released: 10/01/2018
Last modified: 13/03/2024
Overview 3D View Sample Experiment Validation Additional data Links
Overview 3D View Sample Experiment Validation Additional data Links

EMD-7115
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3D volume (map.gz) Experimental metadata (xml) Experimental Metadata (cif.gz)
Map-only Validation report (pdf.gz) Map-only Validation report (cif.gz) Map-only Validation report (xml.gz)
Map and PDB model 6bno summary report (pdf.gz) Map and 6bno FULL report (pdf.gz)
EMICSS annotations (xml)

Structure of bare actin filament

EMD-7115

Helical reconstruction
5.5 Å
EMD-7115
3D View Gallery
Deposition: 17/11/2017
Map released: 10/01/2018
Last modified: 13/03/2024
Overview 3D View Sample Experiment Validation Additional data Links
Method: Helical reconstruction
Aggregation State: Filament
Specimen preparation [1]
Concentration: 0.025 mg/mL
Details: Filamentous bare actin
Buffer
pH: 7.5
Buffer components [8]:
Name Formula Concentration ChEBI
Potassium chloride KCl 50.0 mM
Magnesium chloride MgCl2 1.0 mM
EGTA C14H24N2O10 1.0 mM
Imidazole C3H4N2 10.0 mM
Tris hydrochloride C4H11NO3 2.0 mM
Dithiothreitol C4H10O2S2 0.5 mM
Adenosine triphosphate C10H16N5O13P3 200.0 mM
Sodium azide NaN3 0.01 %
Details: Buffer was filtered through 0.44 um filter and degassed.
Grid
Mesh: 200
Model: C-flat-1.2/1.3
Material: COPPER
Pretreatment
Type: PLASMA CLEANING
Time: 6 s
Atmosphere: OTHER
Vitrification
Cryogen name: ETHANE
Chamber humidity: 95%
Chamber temperature: 298 K
Instrument: LEICA EM GP
Details: Sample was applied to a glow-discharged holey carbon grid, incubated for 60 seconds and blotted for 3 seconds from the backside with filter paper..
Microscopy [1]
Microscope: FEI TECNAI 20
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 200 kV
C2 aperture diameter: 100.0 µm
Nominal CS: 2.0 mm
Nominal defocus: 1.5 µm - 3.0 µm
Nominal magnification: 29000.0
Specimen holder model: GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER
Cooling holder cryogen: NITROGEN
Alignment procedure: COMA FREE
Image Recording [1]
Detector model: GATAN K2 SUMMIT (4k x 4k)
Detector mode: COUNTING
Dimensions: 3838 pixel x 3710 pixel
Frames per image: 1-24
Number of grids: 1
Number of real images: 442
Average exposure time: 0.25 s
Average electron dose per image: 1.5 e/Å2
Image processing [1]
Final reconstruction
Resolution: 5.5 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of classed used: 1
Number of images used: 63139
Algorithm: FOURIER SPACE
⌯ Applied Symmetry
ΔΖ: 28.11 Å
ΔΦ: -166.6°
Axial symmetry: C1
Software [1]
Name Version Details
FREALIGN 9.11 -
Startup model [1]
Type: EMDB MAP
EMDB model: EMD-1990
Details:Low-pass filtered to 35 A
⦩ Final angle assignment
Type: NOT APPLICABLE
Software [1]
Name Version Details
FREALIGN 9.11 -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: CryoEM density map of actin alone, sharpened with a -350 B factor
⬡ Geometry
X Y Z
Origin -256 -256 -256
Dimensions (px) 512 512 512
Dimensions (Å) 650.24 650.24 650.24
Voxel size (Å) 1.27 1.27 1.27
Contour list
Primary Level Source
True 12.0 AUTHOR