EMD-4339

Single-particle
3.6 Å
EMD-4339
3D View Gallery
Deposition: 21/03/2018
Map released: 02/05/2018
Last modified: 13/11/2024
Overview 3D View Sample Experiment Validation Additional data Links
Overview 3D View Sample Experiment Validation Additional data Links

EMD-4339
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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 6g1k summary report (pdf.gz) Map and 6g1k FULL report (pdf.gz)
EMICSS annotations (xml)

Electron cryo-microscopy structure of the canonical TRPC4 ion channel

EMD-4339

Single-particle
3.6 Å
EMD-4339
3D View Gallery
Deposition: 21/03/2018
Map released: 02/05/2018
Last modified: 13/11/2024
Overview 3D View Sample Experiment Validation Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.25 mg/mL
Details: The sample was monodisperse
Buffer
pH: 7.4
Buffer components [1]:
Name Formula Concentration ChEBI
PBS - - -
Grid
Mesh: 300
Model: Quantifoil R1.2/1.3
Material: COPPER
Pretreatment
Type: GLOW DISCHARGE
Atmosphere:
Support Film [1]
Material Topology Thickness
CARBON HOLEY -
Vitrification
Cryogen name: ETHANE
Chamber humidity: 100%
Chamber temperature: 277.15 K
Instrument: FEI VITROBOT MARK III
Microscopy [1]
Microscope: FEI TITAN KRIOS
Illumination mode: OTHER
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Nominal defocus: 1.2 µm - 2.4 µm
Calibrated defocus: 0.844 µm - 2.931 µm
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Specialist optics
SPH aberration_corrector: CS corrected Microscope
Image Recording [1]
Detector model: GATAN K2 SUMMIT (4k x 4k)
Detector mode: COUNTING
Number of grids: 4
Number of real images: 3890
Average exposure time: 12.0 s
Average electron dose per image: 70.0 e/Å2
Image processing [1]
Final reconstruction
Resolution: 3.6 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of classed used: 6
Number of images used: 132622
Algorithm: FOURIER SPACE
⌯ Applied Symmetry
Point group: C4
Software [1]
Name Version Details
SPHIRE 1.0 -
Startup model [1]
Type: NONE
Details:VIPER model
⦨ Initial angle assignment
Type: OTHER
Details: VIPER METHOD
Software [1]
Name Version Details
SPHIRE 1.0 RVIPER
⦩ Final angle assignment
Type: PROJECTION MATCHING
Angular sampling: 0.9375 degrees
Software [1]
Name Version Details
SPHIRE 1.0 MERIDIEN
Particle selection [1]
Selected Ref. model Method Software Details
426377 - - - -
Final 3D classification
Number of classes: 6
Avg. number of members per classes: 20000.0
Details: SORT3D DEPTH
Software [1]
Name Version Details
SPHIRE 1.0 SORT3D DEPTH
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
⬡ Geometry
X Y Z
Origin 0 0 0
Dimensions (px) 224 224 224
Dimensions (Å) 244.16 244.16 244.16
Voxel size (Å) 1.09 1.09 1.09
Contour list
Primary Level Source
True 0.014 EMDB