7QXI
Cryo-EM structure of RNA polymerase-sigma54 holo enzyme with promoter DNA closed complex
ELECTRON MICROSCOPY
Starting Model(s)
| Initial Refinement Model(s) | |||
|---|---|---|---|
| Type | Source | Accession Code | Details |
| experimental model | PDB | 5NSR | |
| Sample |
|---|
| Cryo-EM structure of RNA polymerase-sigma54 holo enzyme with promoter DNA closed complex |
| Sample Components |
| DNA-directed RNA polymerase subunits alpha, beta, beta' and omega |
| RNA polymerase sigma-54 factor |
| Non-Template promoter DNA |
| Template DNA promoter |
| 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 | 29321 |
| Reported Resolution (Å) | 3.4 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (5NSR) | ||||
| Refinement Space | RECIPROCAL | ||||
| Refinement Protocol | RIGID BODY FIT | ||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | |||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GATAN K3 (6k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 50 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | FEI TITAN KRIOS |
| Minimum Defocus (nm) | 1400 |
| Maximum Defocus (nm) | 2600 |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | FEI TITAN KRIOS AUTOGRID HOLDER |
| Nominal Magnification | 81000 |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| CTF CORRECTION | Gctf | GCTF_v1.18_sm30-75_cu10.1 |
| MODEL FITTING | UCSF Chimera | chimera/1.13.1 |
| MODEL FITTING | Coot | Coot/0.8.9.2 |
| MODEL REFINEMENT | PHENIX | phenix/1.13-2998 |
| MODEL REFINEMENT | REFMAC | ccp4/7.0 software package |
| INITIAL EULER ASSIGNMENT | RELION | Relion3.1 |
| FINAL EULER ASSIGNMENT | RELION | Relion3.1 |
| CLASSIFICATION | RELION | Relion3.1 |
| RECONSTRUCTION | RELION | Relion3.1 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 2200000 | |||
