8UYB
Magnesium transporter MgtA dimer from E. coli in 5 mM MgCl2 and 5 mM ATPyS
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| f_dihedral_angle_d | 5.85 |
| f_angle_d | 0.558 |
| f_chiral_restr | 0.04 |
| f_plane_restr | 0.005 |
| f_bond_d | 0.002 |
| Sample |
|---|
| Magnesium transporter MgtA from Escherichia coli in the dimeric form in the presence of 5 mM MgCl2 and 5 mM ATPyS |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | LEICA EM GP |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 28120 |
| Reported Resolution (Å) | 3.87 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | 2 | 3 | ||
| Refinement Space | REAL | REAL | REAL | ||
| Refinement Protocol | RIGID BODY FIT | FLEXIBLE FIT | FLEXIBLE FIT | ||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K3 BIOQUANTUM (6k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 50 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | TFS KRIOS |
| Minimum Defocus (nm) | 1000 |
| Maximum Defocus (nm) | 2000 |
| 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 | 105000 |
| Calibrated Magnification | 60241 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | cisTEM | |
| IMAGE ACQUISITION | SerialEM | 3.8-11 |
| CTF CORRECTION | cisTEM | |
| MODEL FITTING | UCSF Chimera | 8.6.10 |
| CTF CORRECTION | cryoSPARC | |
| MODEL FITTING | Coot | 0.9.8.7 |
| MODEL REFINEMENT | Coot | 0.9.8.7 |
| MODEL FITTING | PHENIX | 1.20.1-4487 |
| MODEL REFINEMENT | PHENIX | 1.20.1-4487 |
| INITIAL EULER ASSIGNMENT | cryoSPARC | |
| FINAL EULER ASSIGNMENT | cryoSPARC | |
| CLASSIFICATION | cryoSPARC | |
| RECONSTRUCTION | cryoSPARC | |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 454,311 particles were initially selected from dataset 1 (2,849 selected movies from 3,396 total). 1,329,014 particles were initially selected from dataset 2 (6,337 selected movies from 6,472 total). | |||
