ELECTRON MICROSCOPY

Sample

Streptomyces griseus Family 2B encapsulin shell with 2-methylisoborneol synthase cargo

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details Blot force: 20 Blot time: 4 seconds
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 51173
Reported Resolution (Å) 3.02
Resolution Method FSC 0.143 CUT-OFF
Other Details Homogeneous refinement was performed against an ab-initio reconstruction map with I symmetry imposed, per particle defocus optimization, per-group CTF parameterization, and Ewald sphere correction enabled with a positive curvature sign.
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol FLEXIBLE FIT
Refinement Target cross-correlation coefficient
Overall B Value 115.8
Fitting Procedure ?
Details An AlphaFold-generated model was fit into the map using ChimeraX v1.5. The model was then refined iteratively by alternating rounds of manual refinement in Coot v8.9.1 and real-space refinements using PHENIX v1.20.1-4487.
Data Acquisition
Detector Type GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å2) 42.94
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TALOS ARCTICA
Minimum Defocus (nm) 800
Maximum Defocus (nm) 1800
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS ?
Imaging Mode BRIGHT FIELD
Specimen Holder Model ?
Nominal Magnification 45000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 200
Imaging Details ?
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION cryoSPARC 4.4.0+231114
IMAGE ACQUISITION Leginon ?
CTF CORRECTION cryoSPARC 4.4.0+231114
MODEL FITTING UCSF ChimeraX 1.5
INITIAL EULER ASSIGNMENT cryoSPARC 4.4.0+231114
FINAL EULER ASSIGNMENT cryoSPARC 4.4.0+231114
RECONSTRUCTION cryoSPARC 4.4.0+231114
MODEL REFINEMENT Coot 8.9.1
MODEL REFINEMENT PHENIX 1.20.1-4487
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION ?