EMD-7907

Single-particle
10.0 Å
EMD-7907
3D View Gallery
Deposition: 23/05/2018
Map released: 09/01/2019
Last modified: 30/08/2023
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Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-7907
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3D volume (map.gz) Experimental metadata (xml)
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EMICSS annotations (xml)

Two retinoschisin molecules interacting laterally forming a unit cell of a filamentous strand.

EMD-7907

Single-particle
10.0 Å
EMD-7907
3D View Gallery
Deposition: 23/05/2018
Map released: 09/01/2019
Last modified: 30/08/2023
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.1 mg/mL
Buffer
pH: 7.4
Buffer components [3]:
Name Formula Concentration ChEBI
Sodium phosphate NaHPO4 20.0 mM
Sodium chloride NaCl 500.0 mM
Imidazole C3H4N2 200.0 mM
Grid
Mesh: 400
Model: C-flat-2/2
Material: COPPER
Pretreatment
Type: PLASMA CLEANING
Atmosphere:
Support Film [1]
Material Topology Thickness
CARBON HOLEY ARRAY -
Vitrification
Cryogen name: ETHANE
Chamber humidity: 90%
Chamber temperature: 293 K
Instrument: LEICA EM GP
Microscopy [1]
Microscope: FEI TITAN KRIOS
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal defocus: 1.0 µm - 3.0 µm
Calibrated defocus: 1.04 µm - 3.23 µm
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Image Recording [1]
Detector model: GATAN K2 SUMMIT (4k x 4k)
Detector mode: SUPER-RESOLUTION
Frames per image: 1-50
Number of grids: 1
Number of real images: 1136
Average exposure time: 0.25 s
Average electron dose per image: 0.66 e/Å2
Details: 30 degree tilted specimen
Image processing [1]
Final reconstruction
Resolution: 10.0 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 18646
Algorithm: FOURIER SPACE
⌯ Applied Symmetry
Point group: C2
Software [1]
Name Version Details
Bsoft 1.9 -
Startup model [1]
Type: EMDB MAP
EMDB model: EMD-6425
Details:Limited to 20 angstrom
⦨ Initial angle assignment
Type: PROJECTION MATCHING
Software [1]
Name Version Details
Bsoft 1.9 -
⦩ Final angle assignment
Type: PROJECTION MATCHING
Software [1]
Name Version Details
Bsoft 1.9 -
Particle selection [1]
Selected Ref. model Method Software Details
26702 - - - -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: RS1 linear strand unit cell with two double octamer ring molecules.
⬡ Geometry
X Y Z
Dimensions 224 224 224
Origin -112 -112 -112
Spacing 224 224 224
Voxel size 1.04 Å 1.04 Å 1.04 Å
Contour list
Primary Level Source
True 2.0 AUTHOR