6YMW
Cryo-EM structure of yeast mitochondrial RNA polymerase transcription initiation complex
ELECTRON MICROSCOPY
Refinement
| RMS Deviations | |
|---|---|
| Key | Refinement Restraint Deviation |
| f_dihedral_angle_d | 20.3157 |
| f_angle_d | 1.0554 |
| f_chiral_restr | 0.0729 |
| f_bond_d | 0.0079 |
| f_plane_restr | 0.0049 |
| Sample |
|---|
| mitochondria DNA-dependent RNA polymerase pre-initiation complex |
| Sample Components |
| mitochondria DNA-dependent RNA polymerase pre-initiation complex |
| DNA |
| RNA (pppGpG) |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | LEICA EM GP |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | 5 uL sample; back blotting for 12 -14 second |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 62807 |
| Reported Resolution (Å) | 3.71 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (1I4W, 6YMV) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | FLEXIBLE FIT | ||||
| Refinement Target | Coorelation coefficu=ient | ||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | Realspace refinement | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K2 SUMMIT (4k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 61 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | FEI TITAN KRIOS |
| Minimum Defocus (nm) | 7000 |
| Maximum Defocus (nm) | 22000 |
| 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 | 165000 |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | RELION | 3.08 |
| IMAGE ACQUISITION | EPU | 2.6.1 |
| MODEL FITTING | Coot | |
| INITIAL EULER ASSIGNMENT | RELION | 3.08 |
| FINAL EULER ASSIGNMENT | RELION | 3.08 |
| CLASSIFICATION | RELION | 3.08 |
| RECONSTRUCTION | RELION | 3.08 |
| MODEL REFINEMENT | PHENIX | 1.16 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| NONE | ||||
