EMD-4497

Single-particle
4.3 Å
EMD-4497
3D View Gallery
Deposition: 26/12/2018
Map released: 21/08/2019
Last modified: 16/10/2024
Overview 3D View Sample Experiment Validation Additional data Links
Overview 3D View Sample Experiment Validation Additional data Links

EMD-4497
Download
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 6qc5 summary report (pdf.gz) Map and 6qc5 FULL report (pdf.gz)
EMICSS annotations (xml)

Ovine respiratory complex I FRC closed class 1

EMD-4497

Single-particle
4.3 Å
EMD-4497
3D View Gallery
Deposition: 26/12/2018
Map released: 21/08/2019
Last modified: 16/10/2024
Overview 3D View Sample Experiment Validation Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 2 mg/mL
Buffer
pH: 7.4
Buffer components [3]:
Name Formula Concentration ChEBI
Sodium chloride NaCl 0.25 M
HEPES - 0.02 M -
Brij-35 - 0.02 % -
Details: 250 mM NaCl, 20 mM HEPES, pH 7.7, 0.02% Brij-35
Vitrification
Cryogen name: PROPANE
Chamber humidity: 95%
Chamber temperature: 277 K
Instrument: FEI VITROBOT MARK IV
Details: Blotting for 30 seconds at 4 degrees Celsius, 95% humidity and flash freezing.
Microscopy [1]
Microscope: FEI TITAN KRIOS
Illumination mode: OTHER
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
Calibrated defocus: 1.5 µm - 3.0 µm
Calibrated magnification: 100000.0
Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER
Cooling holder cryogen: NITROGEN
Image Recording [1]
Detector model: FEI FALCON II (4k x 4k)
Number of grids: 1
Number of real images: 1854
Average exposure time: 2.0 s
Average electron dose per image: 51.0 e/Å2
Image processing [1]
Final reconstruction
Resolution: 4.3 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of classed used: 1
Number of images used: 22107
⌯ Applied Symmetry
Point group: C1
Software [1]
Name Version Details
RELION 2 -
Startup model [1]
Type: PDB ENTRY
PDB model: 5LNK
⦨ Initial angle assignment
Type: MAXIMUM LIKELIHOOD
Software [1]
Name Version Details
RELION 2 -
⦩ Final angle assignment
Type: MAXIMUM LIKELIHOOD
Software [1]
Name Version Details
RELION 2 -
Particle selection [1]
Selected Ref. model Method Software Details
400000 - - - -
Final 3D classification
Number of classes: 3
Software [1]
Name Version Details
RELION 2 -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: Ovine mitochondrial respiratory complex I FRC closed class 1.
⬡ Geometry
X Y Z
Origin 0 0 0
Dimensions (px) 512 512 512
Dimensions (Å) 716.8 716.8 716.8
Voxel size (Å) 1.4 1.4 1.4
Contour list
Primary Level Source
True 0.15 AUTHOR