ELECTRON MICROSCOPY

Sample

Nanobody PVSS8A in complex with poliovirus P1/Mahoney

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument HOMEMADE PLUNGER
Cryogen Name ETHANE
Sample Vitrification Details Blotted for 4 seconds before plunging into liquid ethane (homemade plunger).
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 24717
Reported Resolution (Å) 3.8
Resolution Method FSC 0.143 CUT-OFF
Other Details (Single particle details: The particles were processed using Frealign.) (Single particle--Applied symmetry: I)
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space RECIPROCAL
Refinement Protocol FLEXIBLE FIT
Refinement Target ML agreement with Fourier amplitudes and phases
Overall B Value ?
Fitting Procedure ?
Details REFINEMENT PROTOCOL--flexible DETAILS--Using stereochemically and icosahedrally restrained maximum likelihood refinement in REFMAC5, a representative subset of the full atomic model with all neighbors present was built and refined to fit the corresponding subset of the experimental map. Portions of the model whose density resembled a structural homolog were identified and restrained to agree with the homolog. Detailed atomic models were constructed in areas of difference wherever the resolution of the map permitted. The Fourier-amplitude-weighted average cosine of the phase discrepancy was tracked.
Data Acquisition
Detector Type GATAN K2 (4k x 4k)
Electron Dose (electrons/Å2) 25
Imaging Experiment
Date of Experiment 2013-11-27
Temprature (Kelvin)
Microscope Model FEI POLARA 300
Minimum Defocus (nm) -1400
Maximum Defocus (nm) -4000
Minimum Tilt Angle (degrees) ?
Maximum Tilt Angle (degrees) ?
Nominal CS 2.26
Imaging Mode BRIGHT FIELD
Specimen Holder Model OTHER
Nominal Magnification 23000
Calibrated Magnification 25381
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details Gatan K2 operated in Super-resolution mode
Imaging Experiment
Task Software Package Version
MODEL FITTING Coot ?
MODEL FITTING REFMAC 5
MODEL FITTING SPDBV ?
RECONSTRUCTION FREALIGN ?
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
. per particle