ELECTRON MICROSCOPY

Sample

MVV cleaved synaptic complex intasome

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument HOMEMADE PLUNGER
Cryogen Name ETHANE
Sample Vitrification Details Cryo-EM grids were prepared by freezing using a manual plunger in cold room at 4C
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 147860
Reported Resolution (Å) 3.46
Resolution Method FSC 0.143 CUT-OFF
Other Details ?
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol FLEXIBLE FIT
Refinement Target CC
Overall B Value 262
Fitting Procedure ?
Details The STC model refined in study, with the tDNA removed, was docked into the CSC cryoEM map using UCSF Chimera. It was observed that there were some slight differences in some domain positions, to address this, individual domains that were not well fitted to the map were docked as individual domains to achieve a best-fit starting model. Two (C2 related) NTDs (aa 1-35) were removed from the model due to lack of supporting map. Adjustments were made to the model interactively using Coot and the coordinates were subjected to real-space refinement in Phenix dev-4213-000 employing C2 NCS constraints.
Data Acquisition
Detector Type GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å2) 43.6
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TALOS ARCTICA
Minimum Defocus (nm) 1000
Maximum Defocus (nm) 3000
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 54347
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 200
Imaging Details The stage was tilted to 40 degrees during data collection to account for the preferential orientation of the sample within the vitreous ice.
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION cryoSPARC 3.0
IMAGE ACQUISITION Leginon ?
CTF CORRECTION cryoSPARC 3.0
MODEL FITTING PHENIX dev-4213-000
INITIAL EULER ASSIGNMENT cryoSPARC 3.0
FINAL EULER ASSIGNMENT cryoSPARC 3.0
RECONSTRUCTION cryoSPARC 3.0
MODEL REFINEMENT Coot ?
MODEL REFINEMENT PHENIX ?
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION ?
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