EMD-11072

Single-particle
13.0 Å
EMD-11072
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Deposition: 23/05/2020
Map released: 09/06/2021
Last modified: 09/06/2021
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EMD-11072
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Reconstruction of bovine Ryanodine receptor 2 dimer of tetramers in complex with FKBP12.6 and nanobodies

EMD-11072

Single-particle
13.0 Å
EMD-11072
3D View Gallery
Deposition: 23/05/2020
Map released: 09/06/2021
Last modified: 09/06/2021
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 1 mg/mL
Details: The RyR2 tetrameric channels formed channel-dimers with the nanobody at the dimer-interface bound to the repeat12 domain of the individual channels
Buffer
pH: 7.4
Buffer components [5]:
Name Formula Concentration ChEBI
2-Amino-2-(hydroxymethyl)-1,3-propanediol Tris 25.0 mM
4-(2-Hydroxyethyl)piperazine-1-ethanesulfonic acid HEPES 50.0 mM
Sodium chloride NaCl 200.0 mM
Tris(2-carboxyethyl)phosphine hydrochloride TCEP 5.0 mM
Fluorinated octyl maltoside fOM 0.06 %
Grid
Mesh: 400
Model: Quantifoil R2/1
Material: COPPER
Support Film [2]
Material Topology Thickness
CARBON HOLEY -
GRAPHENE OXIDE CONTINUOUS -
Vitrification
Cryogen name: ETHANE
Chamber humidity: 95%
Chamber temperature: 293.15 K
Instrument: GATAN CRYOPLUNGE 3
Details: .Grid was blotted manually from the back in CP3 cryoplunge (Gatan) for 2s.
Microscopy [1]
Microscope: FEI TITAN KRIOS
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal CS: 0.0 mm
Nominal defocus: 2.0 µm - 4.0 µm
Nominal magnification: 59000.0
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Specialist optics
SPH aberration_corrector: Microscope was modified with a Cs corrector
Image Recording [1]
Detector model: FEI FALCON III (4k x 4k)
Detector mode: INTEGRATING
Number of grids: 1
Number of real images: 4088
Average electron dose per image: 47.0 e/Å2
Image processing [1]
Final reconstruction
Resolution: 13.0 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 9977
⌯ Applied Symmetry
Point group: D4
Software [1]
Name Version Details
RELION 3.1 -
Startup model [1]
Type: OTHER
Details:Initial model was generated in sx_rviper of sphire package
⦨ Initial angle assignment
Type: ANGULAR RECONSTITUTION
Software [1]
Name Version Details
RELION 3.1 -
⦩ Final angle assignment
Type: ANGULAR RECONSTITUTION
Software [1]
Name Version Details
RELION 3.1 -
Particle selection [1]
Selected Ref. model Method Software Details
149707 - - - -
CTF correction
Software [1]
Name Version Details
CTFFIND 4 -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
⬡ Geometry
X Y Z
Dimensions 200 200 200
Origin 0 0 0
Spacing 200 200 200
Voxel size 2.8 Å 2.8 Å 2.8 Å
Contour list
Primary Level Source
True 0.04 AUTHOR