The H/ACA RNP lobe of human telomerase with the dyskerin thumb loop in a semi-closed conformation
ELECTRON MICROSCOPY
Starting Model(s)
| Initial Refinement Model(s) | |||
|---|---|---|---|
| Type | Source | Accession Code | Details |
| experimental model | PDB | 7BGB | |
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| r_dihedral_angle_2_deg | 31.817 |
| r_long_range_B_refined | 15.21 |
| r_long_range_B_other | 15.21 |
| r_dihedral_angle_4_deg | 14.154 |
| r_dihedral_angle_3_deg | 11.836 |
| r_scangle_other | 8.232 |
| r_mcangle_it | 7.52 |
| r_mcangle_other | 7.519 |
| r_dihedral_angle_1_deg | 5.743 |
| r_scbond_it | 4.958 |
| Sample |
|---|
| Human telomerase H/ACA RNP lobe |
| Sample Components |
| Telomerase H/ACA RNP lobe |
| Human telomerase RNA |
| 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 | 199360 |
| Reported Resolution (Å) | 2.7 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (7BGB) | ||||
| Refinement Space | |||||
| Refinement Protocol | |||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K3 (6k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 48 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | FEI TITAN KRIOS |
| 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 | 81000 |
| Calibrated Magnification | 45872 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | RELION | 4 |
| IMAGE ACQUISITION | EPU | 2.13.0.3175REL |
| CTF CORRECTION | CTFFIND | 4 |
| MODEL FITTING | Coot | 0.9.8.1 |
| MODEL FITTING | UCSF ChimeraX | 1.5 |
| MODEL FITTING | ISOLDE | 1.5 |
| INITIAL EULER ASSIGNMENT | RELION | 4 |
| FINAL EULER ASSIGNMENT | RELION | 4 |
| CLASSIFICATION | RELION | 4 |
| RECONSTRUCTION | RELION | 4 |
| MODEL REFINEMENT | REFMAC | 5.8 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 18744992 | |||
