3IYR
tmRNA-SmpB: a journey to the center of the bacterial ribosome
ELECTRON MICROSCOPY
Sample |
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Thermus thermophilus 70S ribosome |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | FEI VITROBOT MARK I |
Cryogen Name | ETHANE |
Sample Vitrification Details |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 70761 |
Reported Resolution (Å) | 13 |
Resolution Method | FSC 0.5 CUT-OFF |
Other Details | |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C1 |
Map-Model Fitting and Refinement | |||||
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Id | 1 (2CZJ) | 2 (2OB7) | |||
Refinement Space | REAL | REAL | |||
Refinement Protocol | FLEXIBLE FIT | FLEXIBLE FIT | |||
Refinement Target | Cross-Correlation | Cross-Correlation | |||
Overall B Value | |||||
Fitting Procedure | |||||
Details | REFINEMENT PROTOCOL--Rigid Body and flexible fitting DETAILS--The domains were initially separately fitted by manual docking and then further optimiz ... | REFINEMENT PROTOCOL--Rigid Body and flexible fitting DETAILS--each subdomain (H2b-c, H5, pk1, pk2, pk3, pk4) were initially separately fitted by manu ... |
Data Acquisition | |||||||||
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Detector Type | KODAK SO-163 FILM | ||||||||
Electron Dose (electrons/Å**2) |
Imaging Experiment | 1 |
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Date of Experiment | 2009-07-01 |
Temperature (Kelvin) | 95 |
Microscope Model | JEOL 2200FS |
Minimum Defocus (nm) | 900 |
Maximum Defocus (nm) | 2200 |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | 2 |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | GATAN LIQUID NITROGEN |
Nominal Magnification | 50000 |
Calibrated Magnification | 45700 |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 200 |
Imaging Details |
EM Software | ||
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Task | Software Package | Version |
MODEL FITTING | MDFF | |
MODEL FITTING | UCSF Chimera | |
RECONSTRUCTION | IMAGIC | 5 |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
Each particle |