3JBA
The U4 antibody epitope on human papillomavirus 16 identified by cryo-EM
ELECTRON MICROSCOPY
Sample |
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Quasi-HPV16 complexed with H16.U4 Fab |
Sample Components |
Human papillomavirus |
H16.U4 antibody |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | GATAN CRYOPLUNGE 3 |
Cryogen Name | ETHANE |
Sample Vitrification Details | Plunged into liquid ethane (GATAN CRYOPLUNGE 3). |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 5806 |
Reported Resolution (Å) | 12 |
Resolution Method | FSC 0.5 CUT-OFF |
Other Details | (Single particle details: The particles were selected using semi-automatic program e2boxer.py.) (Single particle--Applied symmetry: I) |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | I |
Map-Model Fitting and Refinement | |||||
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Id | 1 (3J6R) | ||||
Refinement Space | REAL | ||||
Refinement Protocol | RIGID BODY FIT | ||||
Refinement Target | |||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | REFINEMENT PROTOCOL--rigid body |
Data Acquisition | |||||||||
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Detector Type | GATAN ULTRASCAN 4000 (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 15 |
Imaging Experiment | 1 |
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Date of Experiment | 2014-07-22 |
Temperature (Kelvin) | 95 |
Microscope Model | JEOL 2100 |
Minimum Defocus (nm) | 1600 |
Maximum Defocus (nm) | 5430 |
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 | |
Source | LAB6 |
Acceleration Voltage (kV) | 200 |
Imaging Details |
EM Software | ||
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Task | Software Package | Version |
MODEL FITTING | Situs | |
MODEL FITTING | UCSF Chimera | |
RECONSTRUCTION | Auto3DEM | |
RECONSTRUCTION | EMAN | 2 |
RECONSTRUCTION | RELION |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
each particle |