Rhodospirillum rubrum Nitrogenase-like Methylthio-alkane Reductase Complex with an Oxidized P-cluster
ELECTRON MICROSCOPY
| Sample |
|---|
| Complex of marDK heterotetramer under dithionite reduced conditions |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | FEI VITROBOT MARK IV |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | 3.5ul sample was applied to a glow discharged UltrAuFoil grid, blotted for 3 or 4 seconds before plunged in liquid ethane cooled with liquid nitrogen. ... |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 149015 |
| Reported Resolution (Å) | 2.35 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | Final step was actually Non-uniform Refinement of two classes of an Ab Initio reconstruction. |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C2 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | AB INITIO MODEL | ||||
| 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 | 109454 |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details | Sample was screened using negative staining and Cryo-EM on a screening microscope for sample readiness assessment before automated high-throughput and high-resolution data collection on Titan Krios. Multiple batches of Cryo-EM specimen were prepared in order to deal with the orientation preference. The calibrated minimum/maximum defocus were the calculated minimum and maximum of images that with contaminants or broken ice. |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| PARTICLE SELECTION | cryoSPARC | 4.2.1 |
| IMAGE ACQUISITION | EPU | 2.12 |
| CTF CORRECTION | cryoSPARC | 4.2.1 |
| MODEL FITTING | PHENIX | |
| MODEL REFINEMENT | PHENIX | |
| MODEL REFINEMENT | ISOLDE | |
| CLASSIFICATION | cryoSPARC | 4.2.1 |
| RECONSTRUCTION | cryoSPARC | 4.2.1 |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PHASE FLIPPING AND AMPLITUDE CORRECTION | 6195342 | |||
