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Cryo-EM structure of Dengue virus serotype2 US/BID-V594/2006 strain bound with J9 fab.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model SwissModel in silico model AlphaFold
Sample Dengue virus serotype2 US/BID-V594/2006 strain bound with J9 fab Sample Components dengue virus type 2 monoclonal antibody J9
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM GP Cryogen Name ETHANE Sample Vitrification Details GP2
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 2903 Reported Resolution (Å) 3.85 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry I
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol BACKBONE TRACE Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 40.3
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS 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 FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 81000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION 4.0.1 IMAGE ACQUISITION EPU CTF CORRECTION cryoSPARC 4.6.0 MODEL FITTING UCSF Chimera 1.18 INITIAL EULER ASSIGNMENT cryoSPARC 4.6.0 FINAL EULER ASSIGNMENT cryoSPARC 4.6.0 CLASSIFICATION cryoSPARC 4.6.0 RECONSTRUCTION cryoSPARC 4.6.0 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 15000