ELECTRON MICROSCOPY

Sample

Influenza-virus hemagglutinin H1 complexed with K1915 single-chain variable-domain fragment

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK I
Cryogen Name ETHANE
Sample Vitrification Details ?
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 142314
Reported Resolution (Å) 4.8
Resolution Method FSC 0.143 CUT-OFF
Other Details Refinement and classification were limited to 10 Angstrom resolution.
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol OTHER
Refinement Target Correlation coefficient
Overall B Value ?
Fitting Procedure ?
Details Domains were initially placed manually using Chimera. The HA trimer was from PDB ID 5UGY. Fab was initially obtained using MODELLER, with PDB ID 4K8R as template. The structure was refined using PHENIX.
Data Acquisition
Detector Type GATAN K2 SUMMIT (4k x 4k)
Electron Dose (electrons/Å2) 40
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model FEI TITAN KRIOS
Minimum Defocus (nm) ?
Maximum Defocus (nm) ?
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 18000
Calibrated Magnification 30444
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details ?
Imaging Experiment
Task Software Package Version
IMAGE ACQUISITION SerialEM ?
CTF CORRECTION CTFFIND3 ?
MODEL FITTING Manual placement ?
INITIAL EULER ASSIGNMENT IMAGIC ?
FINAL EULER ASSIGNMENT FREALIGN 9.11
CLASSIFICATION FREALIGN 9.11
RECONSTRUCTION FREALIGN 9.11
MODEL REFINEMENT PHENIX 1.10_2155
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION ?