3J4P
Electron Microscopy Analysis of a Disaccharide Analog complex Reveals Receptor Interactions of Adeno-Associated Virus
ELECTRON MICROSCOPY
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 3J1Q |
Sample |
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Recombinant Adeno-Associated Virus DJ |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | FEI VITROBOT MARK IV |
Cryogen Name | ETHANE |
Sample Vitrification Details | Both sides of the grid were blotted for 2.5 seconds before plunging in liquid ethane (FEI VITROBOT MARK IV). |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 45000 |
Reported Resolution (Å) | 4.8 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | Final map was amplitude corrected using embfactor. |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | I |
Map-Model Fitting and Refinement | |||||
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Id | 1 (3J1Q) | ||||
Refinement Space | REAL | ||||
Refinement Protocol | RIGID BODY FIT | ||||
Refinement Target | CC | ||||
Overall B Value | 25 | ||||
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 | 2013-04-15 |
Temperature (Kelvin) | 94 |
Microscope Model | FEI TITAN KRIOS |
Minimum Defocus (nm) | 800 |
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 | 120000 |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 120 |
Imaging Details |
EM Software | ||
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Task | Software Package | Version |
MODEL FITTING | UCSF Chimera | |
RECONSTRUCTION | Appion | |
RECONSTRUCTION | FREALIGN |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
each particle |