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CryoEM structure of disease related M854K MDA5-dsRNA filament in complex with ATP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6G19
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 15.021 f_angle_d 0.7543 f_chiral_restr 0.0483 f_bond_d 0.0092 f_plane_restr 0.0038
Sample M854K MDA5-dsRNA filament in complex with ATP 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-PROPANE Sample Vitrification Details Grids were blotted for 3 s; blot force 10, 5, 0, -5, -10
3D Reconstruction Reconstruction Method HELICAL Number of Particles 383128 Reported Resolution (Å) 2.8 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type HELICAL Axial Symmetry C1 Axial Rise 43.92 Angular Rotation 74.63
Map-Model Fitting and Refinement Id 1 (6G19) Refinement Space RECIPROCAL Refinement Protocol OTHER Refinement Target Correlation coefficient Overall B Value 50 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) -1200 Maximum Defocus (nm) -2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode DARK 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 3.1 IMAGE ACQUISITION EPU CTF CORRECTION CTFFIND MODEL FITTING UCSF Chimera 1.13.1 MODEL REFINEMENT PHENIX 1.18.2 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 3.1 CLASSIFICATION RELION 3.1 RECONSTRUCTION RELION 3.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1068108