ELECTRON MICROSCOPY

Sample

Binary complex of human uPAR and Fab fragment of anti-uPAR antibody FL1

Specimen Preperation
Sample Aggregation State PARTICLE
Vitrification Instrument FEI VITROBOT MARK IV
Cryogen Name ETHANE
Sample Vitrification Details ?
3D Reconstruction
Reconstruction Method SINGLE PARTICLE
Number of Particles 184642
Reported Resolution (Å) 2.94
Resolution Method FSC 0.143 CUT-OFF
Other Details ?
Refinement Type
Symmetry Type POINT
Map-Model Fitting and Refinement
ID 1
Refinement Space REAL
Refinement Protocol FLEXIBLE FIT
Refinement Target cross-correlation coefficient
Overall B Value 112
Fitting Procedure ?
Details An initial local fitting was performed with ISOLDE implemented in ChimeraX prior to real-space refinement in phenix.
Data Acquisition
Detector Type GATAN K3 BIOQUANTUM (6k x 4k)
Electron Dose (electrons/Å2) 10.7
Imaging Experiment
Date of Experiment ?
Temprature (Kelvin)
Microscope Model TFS KRIOS
Minimum Defocus (nm) 500
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 105000
Calibrated Magnification ?
Source FIELD EMISSION GUN
Acceleration Voltage (kV) 300
Imaging Details ?
Imaging Experiment
Task Software Package Version
PARTICLE SELECTION cryoSPARC 4.5.3
IMAGE ACQUISITION EPU 3.9
CTF CORRECTION cryoSPARC 4.5.3
MODEL FITTING ISOLDE 1.10.1
INITIAL EULER ASSIGNMENT cryoSPARC 4.5.3
FINAL EULER ASSIGNMENT cryoSPARC 4.5.3
CLASSIFICATION cryoSPARC 4.5.3
RECONSTRUCTION cryoSPARC 4.5.3
MODEL REFINEMENT PHENIX 1.21.2_5419:
Image Processing
CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details
PHASE FLIPPING AND AMPLITUDE CORRECTION CTF corrections were performed after 3D reconstruction to improve the final resolution
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