EMD-3838

Single-particle
3.6 Å
EMD-3838
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Deposition: 07/08/2017
Map released: 13/06/2018
Last modified: 25/11/2020
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Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-3838
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3D volume (map.gz) Experimental metadata (xml)
Map-only Validation report (pdf.gz) Map-only Validation report (cif.gz) Map-only Validation report (xml.gz)
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EMICSS annotations (xml)

Cryo-EM structure of F-actin in complex with AppNHp (AMPPNP)

EMD-3838

Single-particle
3.6 Å
EMD-3838
3D View Gallery
Deposition: 07/08/2017
Map released: 13/06/2018
Last modified: 25/11/2020
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Filament
Specimen preparation [1]
Details: Rise 27.36 A, Twist -166.58 degrees
Buffer
pH: 7.5
Buffer components [6]:
Name Formula Concentration ChEBI
HEPES C8H18N2O4S 5.0 mM
Potassium chloride KCl 0.1 M
Magnesium chloride MgCl2 2.0 mM
TCEP C9H15O6P 0.5 mM
Sodium azide NaN3 2.0 mM
AppNHp C10H17N6O12P3 0.4 mM
Details: 5 mM HEPES pH 7.5, 0.1 M KCl, 2 mM MgCl2, 2 mM, 2 mM NaN3, 0.5 mM TCEP and 0.4 mM AppNHp.
Grid
Model: Quantifoil R2/1
Material: COPPER
Pretreatment
Type: GLOW DISCHARGE
Atmosphere:
Vitrification
Cryogen name: ETHANE
Chamber humidity: 90%
Chamber temperature: 298 K
Instrument: GATAN CRYOPLUNGE 3
Details: Manual backside blotting using Whatman filter paper No.5..
Microscopy [1]
Microscope: FEI TITAN KRIOS
Illumination mode: SPOT SCAN
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Cooling holder cryogen: NITROGEN
Alignment procedure: COMA FREE
Details: Cs-corrected microscope
Specialist optics
SPH aberration_corrector: Cs-corrected microscope
Image Recording [1]
Detector model: FEI FALCON II (4k x 4k)
Detector mode: INTEGRATING
Frames per image: 1-4
Number of real images: 2416
Average exposure time: 1.5 s
Average electron dose per image: 110.0 e/Å2
Image processing [1]
Final reconstruction
Resolution: 3.6 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 284554
Algorithm: BACK PROJECTION
Software [1]
Name Version Details
RELION 2.0 -
Startup model [1]
Type: INSILICO MODEL
Insilico model: Initial model was generated from PDB 5JLF and filtered to 20 A using SPARX.
⦨ Initial angle assignment
Type: PROJECTION MATCHING
Software [1]
Name Version Details
RELION 2.0 -
⦩ Final angle assignment
Type: PROJECTION MATCHING
Software [1]
Name Version Details
RELION 2.0 -
Particle selection [1]
Selected Ref. model Method Software Details
317928 - - - -
CTF correction
Software [2]
Name Version Details
CTFFIND v4 -
RELION 2.0 -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Cryo-EM structure of F-actin in complex with AppNHp (AMPPNP)
⬡ Geometry
X Y Z
Dimensions 260 260 260
Origin 0 0 0
Spacing 260 260 260
Voxel size 1.14 Å 1.14 Å 1.14 Å
Contour list
Primary Level Source
True 0.095 AUTHOR