ELECTRON MICROSCOPY

Sample

Quasi-human papillomavirus 16 complexed with H16.14J Fab

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument GATAN CRYOPLUNGE 3
Cryogen Name ETHANE
Sample Vitrification Details Blot for 0.7 seconds before plunging into liquid ethane (GATAN CRYOPLUNGE 3)
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 5642
Reported Resolution (Å) 13.9
Resolution Method FSC 0.5 CUT-OFF
Other Details Semi-automatic particle selection was performed using e2boxer.py to obtain the particle coordinates, followed by particle boxing, linearization, normalization, and apodization of the images using Robem. Defocus and astigmatism values necessary to perform contrast transfer function (CTF) correction for the extracted particles were assessed using Robem. The icosahedrally averaged reconstruction was initiated using a random model generated with setup_rmc. For the last step of refinement, the final maps were CTF-corrected using a B factor of 200 A2. (Single particle--Applied symmetry: I)
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol RIGID BODY FIT
Refinement Target ?
Overall B Value ?
Fitting Procedure ?
Details REFINEMENT PROTOCOL--rigid body
Data Acquisition
Detector Type GATAN ULTRASCAN 4000 (4k x 4k)
Electron Dose (electrons/Å2) 15
Imaging Experiment
Date of Experiment 2014-08-27
Temprature (Kelvin)
Microscope Model JEOL 2100
Minimum Defocus (nm) 620
Maximum Defocus (nm) 4690
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 ?
Imaging Experiment
Task Software Package Version
MODEL FITTING Situs ?
MODEL FITTING UCSF Chimera ?
RECONSTRUCTION Auto3DEM ?
RECONSTRUCTION EMAN 2
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
. Each particle
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