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Polymerase theta N-terminal domain in complex with ATPase inhibitor compound
Specimen Preparation
Sample Aggregation State
PARTICLE
Vitrification Instrument
Cryogen Name
ETHANE
Sample Vitrification Details
3 microL drop of sample suspension is applied to an EM grid that has been plasma-cleaned using a Gatan Solarus. After blotting the sample away with fi ...
3 microL drop of sample suspension is applied to an EM grid that has been plasma-cleaned using a Gatan Solarus. After blotting the sample away with filter paper, grids are plunge-frozen in liquid ethane. Grids are stored under liquid nitrogen until transferred to the transmission electron microscope for imaging.
3D Reconstruction
Reconstruction Method
SINGLE PARTICLE
Number of Particles
387000
Reported Resolution (Å)
2.9
Resolution Method
FSC 0.143 CUT-OFF
Other Details
Refinement Type
Symmetry Type
POINT
Map-Model Fitting and Refinement
Id
1 (5AGA)
Refinement Space
REAL
Refinement Protocol
FLEXIBLE FIT
Refinement Target
CC_mask: 0.7952
Overall B Value
112.5
Fitting Procedure
Details
Data Acquisition
Detector Type
GATAN K3 (6k x 4k)
Electron Dose (electrons/Å**2)
53
Imaging Experiment
1
Date of Experiment
Temperature (Kelvin)
Microscope Model
TFS KRIOS
Minimum Defocus (nm)
1200
Maximum Defocus (nm)
1500
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode
BRIGHT FIELD
Specimen Holder Model
Nominal Magnification
105000
Calibrated Magnification
Source
FIELD EMISSION GUN
Acceleration Voltage (kV)
300
Imaging Details
EM Software
Task
Software Package
Version
PARTICLE SELECTION
cryoSPARC
3.1
IMAGE ACQUISITION
Leginon
MODEL FITTING
Coot
MODEL REFINEMENT
PHENIX
1.19.2_4158
Image Processing
CTF Correction Type
CTF Correction Details
Number of Particles Selected
Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION
~2.5M particles were initially selected from 4985 manually curated micrographs
using cryoSPARC 3.1 live. All subsequent data processing was carried out in
cryoSPARC 3.1.These particles were subjected to 3 rounds of 2D classification. A subset of particles from the final round of 2D classification were used to train the Deep Learning particle picker Topaz (as implemented in cryoSPARC 3.1). The Topaz trained model was used to re-extract particles from the 4985 micrographs, yielding a new particle set comprising 387k particles.