9N6C

ELECTRON MICROSCOPY

Sample

Retron IA surveillance complex with HNH nuclease bound in the "down" orientation

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details ?
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 513948
Reported Resolution (Å) 2.99
Resolution Method FSC 0.143 CUT-OFF
Other Details Reported resolution from cryoSPARC's GSFSC estimation
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol RIGID BODY FIT
Refinement Target Cross-correlation coefficient
Overall B Value ?
Fitting Procedure ?
Details Alphafold predicted structures of each individual subunit were first rigid body fit in ChimeraX using the fit in map command before initial relaxation using ISOLDE and final refinement in PHENIX RealSpaceRefinement. COOT was used for manual editing.
Data Acquisition
Detector Type GATAN K3 (6k x 4k)
Electron Dose (electrons/Å2) 56.69
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TALOS ARCTICA
Minimum Defocus (nm) 800
Maximum Defocus (nm) 2500
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS 2.7
Imaging Mode BRIGHT FIELD
Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER
Nominal Magnification 45000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 200
Imaging Details ?
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION cryoSPARC v4.6.2
CTF CORRECTION cryoSPARC v4.6.2
MODEL FITTING UCSF ChimeraX 1.9
INITIAL EULER ASSIGNMENT cryoSPARC v4.6.2
FINAL EULER ASSIGNMENT cryoSPARC v4.6.2
CLASSIFICATION cryoSPARC v4.6.2
CLASSIFICATION cryoSPARC v4.6.2
RECONSTRUCTION cryoSPARC v4.6.2
MODEL REFINEMENT ISOLDE 1.6.0
MODEL REFINEMENT PHENIX 1.21.2-5419
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION ?