Cryo-EM structure of LARS1:IARS1 complex
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| f_dihedral_angle_d | 5.6001 |
| f_angle_d | 0.8875 |
| f_chiral_restr | 0.0581 |
| f_plane_restr | 0.0085 |
| f_bond_d | 0.0067 |
| Sample |
|---|
| Complex of Leucyl-tRNA synthetase 1 and Isoleucyl-tRNA synthetase |
| 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 | 135800 |
| Reported Resolution (Å) | 3.16 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| Refinement Space | |||||
| Refinement Protocol | RIGID BODY FIT | ||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | Initial fitting with Chimera followed by optimization using Phenix dock_in_map | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | FEI FALCON IV (4k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 60 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | TFS KRIOS |
| 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 | 96000 |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | cryoSPARC | 4.2 |
| IMAGE ACQUISITION | cryoSPARC | 4.2 |
| CTF CORRECTION | cryoSPARC | 4.2 |
| MODEL FITTING | UCSF Chimera | 1.11.12 |
| MODEL FITTING | PHENIX | 1.18.2 |
| INITIAL EULER ASSIGNMENT | cryoSPARC | 4.2 |
| FINAL EULER ASSIGNMENT | cryoSPARC | 4.2 |
| CLASSIFICATION | cryoSPARC | 4.2 |
| RECONSTRUCTION | cryoSPARC | 4.2 |
| MODEL REFINEMENT | PHENIX | 1.18.2 |
| MODEL REFINEMENT | Coot | 0.8.9 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | Correction was performed following Homogeneous refinement | 4690000 | ||
