3J6Y
S. cerevisiae 80S ribosome bound with Taura syndrome virus (TSV) IRES, 2 degree rotation (Class I)
ELECTRON MICROSCOPY
Sample |
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ribosome-IRES complex |
Sample Components |
80S Ribosome |
Internal Ribosome Entry Site |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | FEI VITROBOT MARK II |
Cryogen Name | ETHANE |
Sample Vitrification Details | Fresh glow discharge, 7 second blot before plunging into liquid ehtane (FEI VITROBOT MARK II). |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 51373 |
Reported Resolution (Å) | 6.1 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | (Single particle--Applied symmetry: C1) |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C1 |
Map-Model Fitting and Refinement | |||||
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Id | 1 (3U5B, 3U5C, 3U5D, 3U5E) | ||||
Refinement Space | REAL | ||||
Refinement Protocol | RIGID BODY FIT | ||||
Refinement Target | Cross-correlation | ||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | REFINEMENT PROTOCOL--rigid body DETAILS--(1) TSV IRES was modeled with iFoldRNA and ModeRNA programs and then fitted into the cryo-EM map in Chimera. ... |
Data Acquisition | |||||||||
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Detector Type | FEI FALCON I (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 30 |
Imaging Experiment | 1 |
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Date of Experiment | 2012-12-26 |
Temperature (Kelvin) | |
Microscope Model | FEI TITAN KRIOS |
Minimum Defocus (nm) | 1150 |
Maximum Defocus (nm) | 6530 |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | 0.01 |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | FEI TITAN KRIOS AUTOGRID HOLDER |
Nominal Magnification | 133333 |
Calibrated Magnification | 132138 |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 300 |
Imaging Details |
EM Software | ||
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Task | Software Package | Version |
CTF CORRECTION | CTFFIND | 3 |
MODEL FITTING | CNS | |
MODEL FITTING | UCSF Chimera | |
RECONSTRUCTION | EMAN | 2 |
RECONSTRUCTION | FREALIGN | |
RECONSTRUCTION | IMAGIC | |
RECONSTRUCTION | RSAMPLE |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
CTFFIND3, FREALIGN per micrograph |