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Cryo-EM structure of dengue virus serotype 3 strain 863DK in complex with human antibody DENV-115 Fab at 4 deg C (subparticle LLR-LRR)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3J6S experimental model PDB 5IFA experimental model PDB 6QB6
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 10.999 f_angle_d 0.627 f_chiral_restr 0.044 f_bond_d 0.004 f_plane_restr 0.004
Sample Dengue virus serotype 3 strain 863DK in complex with human antibody DENV-115 Fab at 4 deg C Sample Components Dengue virus serotype 3 strain 863DK Human antibody DENV-115 Fab (heavy and light chain)
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 114755 Reported Resolution (Å) 4.1 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C2
Map-Model Fitting and Refinement Id 1 (3J6S, 5IFA, 6QB6) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON II (4k x 4k) Electron Dose (electrons/Å**2) 18
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 400 Maximum Defocus (nm) 5000 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 MODEL FITTING UCSF Chimera 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