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Single particle reconstruction of the symmetric core an engineered protein scaffold
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6C9K
Sample Subunit A with DARPin Subunit B Sample Components Subunit B Subunit A with DARPin
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details 2.5 microliter of sample, 0 sec wait, 0 sec drain, 3 sec blot, -15 blot force, grids pre-treated with 0.1% poly-lysine for 6 hours
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 80253 Reported Resolution (Å) 2.9 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry T
Map-Model Fitting and Refinement Id 1 (6C9K) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details Initial local fitting by Chimera and individual residues refined using phenix.real_space_refine
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 56
Imaging Experiment 1 Date of Experiment Temperature (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 130000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 2.0 IMAGE ACQUISITION Leginon CTF CORRECTION CTFFIND 4.1.5 MODEL FITTING PHENIX MODEL REFINEMENT PHENIX INITIAL EULER ASSIGNMENT RELION 2.0 FINAL EULER ASSIGNMENT cryoSPARC v.2.4.0 CLASSIFICATION cryoSPARC v.2.4.0 RECONSTRUCTION cryoSPARC v.2.4.0
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING ONLY 81319