EMD-4073

Single-particle
3.55 Å
EMD-4073
3D View Gallery
Deposition: 01/08/2016
Map released: 05/10/2016
Last modified: 02/10/2019
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links

EMD-4073
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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)
Map and PDB model 5lmn summary report (pdf.gz) Map and 5lmn FULL report (pdf.gz)
EMICSS annotations (xml)

Structure of bacterial 30S-IF1-IF3-mRNA translation pre-initiation complex (state-1A)

EMD-4073

Single-particle
3.55 Å
EMD-4073
3D View Gallery
Deposition: 01/08/2016
Map released: 05/10/2016
Last modified: 02/10/2019
Overview 3D View Sample Experiment Validation Volume Browser Additional data Links
Method: Single-particle
Aggregation State: Particle
Specimen preparation [1]
Concentration: 0.08 mg/mL
Buffer
pH: 7.5
Buffer components [5]:
Name Formula Concentration ChEBI
Hepes-K - 5.0 mM -
Magnessium acetate - 10.0 mM -
Potassium chloride - 50.0 mM -
Ammonium chloride - 10.0 mM -
Beta mercaptoethanol - 6.0 mM -
Grid
Mesh: 400
Model: Quantifoil
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 K
Instrument: FEI VITROBOT MARK I
Microscopy [1]
Microscope: FEI POLARA 300
Illumination mode: FLOOD BEAM
Imaging mode: BRIGHT FIELD
Electron source: FIELD EMISSION GUN
Acceleration voltage: 300 kV
C2 aperture diameter: 50.0 µm
Nominal CS: 2.0 mm
Nominal defocus: 1.5 µm - 3.5 µm
Nominal magnification: 78000.0
Calibrated magnification: 104478.0
Cooling holder cryogen: NITROGEN
Alignment procedure: COMA FREE
Temperature
Minimum: 90.0 K
Maximum: 100.0 K
Image Recording [1]
Detector model: OTHER
Number of grids: 5
Number of real images: 4400
Average exposure time: 1.1 s
Average electron dose per image: 30.0 e/Å2
Details: Recorded in a FEI Falcon III direct electron detector. Images were collected in movie-mode at 32 frames per second
Image processing [1]
Details: FEI Falcon III
Final reconstruction
Resolution: 3.55 Å ( BY AUTHOR)
Resolution method: FSC 0.143 CUT-OFF
Number of images used: 86892
Algorithm: FOURIER SPACE
Details:
Software [1]
Name Version Details
RELION 1.4 -
Startup model [1]
Type: PDB ENTRY
PDB model: 1HR0
⦨ Initial angle assignment
Type: PROJECTION MATCHING
Software [1]
Name Version Details
RELION 1.4 -
⦩ Final angle assignment
Type: ANGULAR RECONSTITUTION
Software [1]
Name Version Details
RELION 1.4 -
Particle selection [1]
Selected Ref. model Method Software Details
666610 - - - -
Final 3D classification
Software [1]
Name Version Details
RELION 1.4 -
CTF correction
Software [1]
Name Version Details
CTFFIND 3 -
Map
Format: CCP4
Data type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Annotation details: For optimal visualization of IF3 N-terminal domain, gauss-filter de map by 1.1 and display it at 0.05 contour
⬡ Geometry
X Y Z
Dimensions 260 260 260
Origin 0 0 0
Spacing 260 260 260
Voxel size 1.34 Å 1.34 Å 1.34 Å
Contour list
Primary Level Source
True 0.09 AUTHOR