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Structural determination of lipid-bound Factor VIII
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold AF-P00451 experimental model PDB 3CDZ experimental model PDB 12JP
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.661 f_angle_d 0.634 f_chiral_restr 0.046 f_plane_restr 0.004 f_bond_d 0.003
Sample Coagulation Factor VIII
Specimen Preparation 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 49208 Reported Resolution (Å) 3.56 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (3CDZ, 12JP) Refinement Space REAL Refinement Protocol BACKBONE TRACE Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON IV (4k x 4k) Electron Dose (electrons/Å**2) 55
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS GLACIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 150000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 5.0.1 IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC 5.0.1 MODEL FITTING UCSF ChimeraX CLASSIFICATION cryoSPARC 5.0.1 RECONSTRUCTION cryoSPARC 5.0.1 MODEL REFINEMENT Coot MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 107362