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COVID-19 RNA-dependent RNA polymerase post-translocated catalytic complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6NUR
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 6.993 f_angle_d 0.615 f_chiral_restr 0.044 f_bond_d 0.005 f_plane_restr 0.003
Sample Structure of COVID-19 RNA-dependent RNA polymerase in complex with RNA
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 119662 Reported Resolution (Å) 3.26 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (6NUR, 6NUR, 6NUR, 6NUR) Refinement Space Refinement Protocol RIGID BODY FIT Refinement Target correlation coefficient Overall B Value 58.5 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 QUANTUM (4k x 4k) Electron Dose (electrons/Å**2) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2000 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 165000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details Preliminary grid screening was preformed manually.
EM Software Task Software Package Version IMAGE ACQUISITION SerialEM CTF CORRECTION cryoSPARC 2.9.1 MODEL FITTING UCSF Chimera 1.14 MODEL REFINEMENT PHENIX 1.16 INITIAL EULER ASSIGNMENT cryoSPARC 2.9.1 FINAL EULER ASSIGNMENT cryoSPARC 2.9.1 CLASSIFICATION cryoSPARC 2.9.1 RECONSTRUCTION cryoSPARC 2.9.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION CTF correction was done by patch CTF correction. 1235162