7Q5B
Cryo-EM structure of Ty3 retrotransposon targeting a TFIIIB-bound tRNA gene
ELECTRON MICROSCOPY
Refinement
RMS Deviations | |
---|---|
Key | Refinement Restraint Deviation |
f_dihedral_angle_d | 30.6476 |
f_angle_d | 0.8529 |
f_chiral_restr | 0.0523 |
f_plane_restr | 0.0056 |
f_bond_d | 0.0042 |
Sample |
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Ty3 retrotransposon engaged with TFIIIB transcription factor and tRNA promoter |
Sample Components |
DNA |
TFIIIB transcription factor |
Specimen Preparation | |
---|---|
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 | 101469 |
Reported Resolution (Å) | 3.98 |
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 | OTHER | ||||
Refinement Target | Correlation Coefficient | ||||
Overall B Value | |||||
Fitting Procedure | |||||
Details |
Data Acquisition | |||||||||
---|---|---|---|---|---|---|---|---|---|
Detector Type | GATAN K2 SUMMIT (4k x 4k) | GATAN K3 (6k x 4k) | |||||||
Electron Dose (electrons/Å**2) | 50 | 70 |
Imaging Experiment | 1 | 2 |
---|---|---|
Date of Experiment | ||
Temperature (Kelvin) | ||
Microscope Model | FEI TITAN KRIOS | FEI TITAN KRIOS |
Minimum Defocus (nm) | 1700 | 2400 |
Maximum Defocus (nm) | 3200 | 4000 |
Minimum Tilt Angle (degrees) | ||
Maximum Tilt Angle (degrees) | ||
Nominal CS | ||
Imaging Mode | BRIGHT FIELD | BRIGHT FIELD |
Specimen Holder Model | FEI TITAN KRIOS AUTOGRID HOLDER | FEI TITAN KRIOS AUTOGRID HOLDER |
Nominal Magnification | 130000 | 81000 |
Calibrated Magnification | ||
Source | FIELD EMISSION GUN | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 300 | 300 |
Imaging Details |
EM Software | ||
---|---|---|
Task | Software Package | Version |
IMAGE ACQUISITION | EPU | |
CTF CORRECTION | CTFFIND | 4 |
IMAGE ACQUISITION | EPU | |
INITIAL EULER ASSIGNMENT | RELION | 3.0.4 |
FINAL EULER ASSIGNMENT | RELION | 3.0.4 |
CLASSIFICATION | RELION | 3.0.4 |
RECONSTRUCTION | RELION | 3.1 |
Image Processing | ||||
---|---|---|---|---|
CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
NONE | 628998 |