ELECTRON MICROSCOPY
Starting Model(s)
| Initial Refinement Model(s) | |||
|---|---|---|---|
| Type | Source | Accession Code | Details |
| experimental model | PDB | 3V2D | |
| experimental model | PDB | 1R73 | |
| experimental model | PDB | 2QYQ | |
| experimental model | PDB | 1QF6 | |
| experimental model | PDB | 1O0W | |
| experimental model | PDB | 2CW9 | |
| experimental model | PDB | 2XZN | |
| experimental model | PDB | 1J26 | |
| experimental model | PDB | 1S3A | |
| Sample |
|---|
| 39S MITOCHONDRIAL RIBOSOMAL SUBUNIT |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| Vitrification Instrument | HOMEMADE PLUNGER |
| Cryogen Name | ETHANE |
| Sample Vitrification Details | MANUAL BLOTTING FOLLOWED BY MANUAL PLUNGING INTO LIQUID ETHANE |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 232181 |
| Reported Resolution (Å) | 4.9 |
| Resolution Method | FSC 0.143 CUT-OFF |
| Other Details | RESOLUTION DETERMIED ACCORDING TO GOLD STANDARD FSC BY FSC EQUAL 0.143 CRITERION FROM TWO INDEPENDENTLY REFINED DATA HALF SETS |
| Refinement Type | HALF-MAPS REFINED INDEPENDENTLY |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 (3V2D, 1R73, 2QYQ, 1QF6, 1O0W, 2CW9, 2XZN, 1J26, 1S3A) | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | OTHER | ||||
| Refinement Target | |||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | REFINEMENT PROTOCOL--X-RAY STRUCTURES, HOMOLOGY MODELS | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | FEI FALCON II (4k x 4k) | ||||||||
| Electron Dose (electrons/Å**2) | 20 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | 79 |
| Microscope Model | FEI TITAN KRIOS |
| Minimum Defocus (nm) | 1200 |
| Maximum Defocus (nm) | 3600 |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | 2.7 |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | |
| Nominal Magnification | 59000 |
| Calibrated Magnification | |
| Source | FIELD EMISSION GUN |
| Acceleration Voltage (kV) | 300 |
| Imaging Details | IMAGES COLLECTED ON A FEI TITAN KRIOS BETWEEN NOVEMBER 2012 AND JUNE 2013. CALIBRATED MAGNIFICATION 141510 FOR FALCON II DATA AND 99290 FOR FALCON I DATA. |
| EM Software | ||
|---|---|---|
| Task | Software Package | Version |
| CTF CORRECTION | CTFFIND | 3 |
| MODEL FITTING | Coot | |
| MODEL FITTING | O | |
| MODEL FITTING | UCSF Chimera | |
| RECONSTRUCTION | IMAGIC | 5 |
| RECONSTRUCTION | RELION | |
| RECONSTRUCTION | SPIDER | |
| Image Processing | ||||
|---|---|---|---|---|
| CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
| PER DETECTOR FRAME | ||||
