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Cryo-EM structure of dengue virus serotype 2 strain D2Y98P-PP1 in complex with human antibody 2D22 Fab at 37 deg C
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4UIF
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.067 f_angle_d 0.517 f_chiral_restr 0.043 f_bond_d 0.005 f_plane_restr 0.004
Sample Dengue virus serotype 2 strain D2Y98P-PP1 in complex with human antibody 2D22 Fab at 37 deg C Sample Components Dengue serotype 2 strain D2Y98P-PP1 Human antibody 2D22 Fab (heavy and light chains)
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 123807 Reported Resolution (Å) 2.8 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry I
Map-Model Fitting and Refinement Id 1 (4UIF) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 25.69
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 500 Maximum Defocus (nm) 4400 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION SerialEM MODEL FITTING Coot MODEL REFINEMENT PHENIX FINAL EULER ASSIGNMENT RELION RECONSTRUCTION RELION
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION