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CryoEM structure of disease related M854K MDA5-dsRNA filament in complex with ADP-AlF4(minor class)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6GKH
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.9203 f_angle_d 0.7363 f_chiral_restr 0.072 f_bond_d 0.0082 f_plane_restr 0.0033
Sample Disease mutant M854K MDA5-dsRNA filament in complex with ADP-AlF4 Sample Components INTERFERON-INDUCED HELICASE C DOMAIN-CONTAINING PROTEIN RNA
Specimen Preparation Sample Aggregation State FILAMENT Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Grids were blotted for 3 s; blot force 10, 5, 0, -5, -10
3D Reconstruction Reconstruction Method HELICAL Number of Particles 62028 Reported Resolution (Å) 4.3 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 45.0795 Angular Rotation 88.0297
Map-Model Fitting and Refinement Id 1 (6GKH) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 147 Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 29.6
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 Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION RELION IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND MODEL FITTING UCSF Chimera INITIAL EULER ASSIGNMENT RELION FINAL EULER ASSIGNMENT RELION CLASSIFICATION RELION RECONSTRUCTION RELION MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 731263