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Structure of elongating SARS-CoV-2 RNA-dependent RNA polymerase with AMP at position -4 (structure 3)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6YYT
Sample SARS-CoV-2 RNA-dependent RNA polymerase complex (nsp12, nsp7, nsp8) with elongation scaffold containing AMP at position -4. Sample Components SARS-CoV-2 RNA-dependent RNA polymerase nsp12 SARS-CoV-2 nsp7 and 8 DNA and RNA
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 819273 Reported Resolution (Å) 2.8 Resolution Method FSC 0.143 CUT-OFF Other Details M was used Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (6YYT) Refinement Space REAL Refinement Protocol OTHER Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 60
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 2.7 Imaging Mode OTHER Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details 30 deg tilt.
EM Software Task Software Package Version PARTICLE SELECTION Warp 1.0.7 IMAGE ACQUISITION SerialEM 3.8 CTF CORRECTION Warp 1.0.7 MODEL FITTING Coot 0.9 MODEL REFINEMENT PHENIX 1.18 CLASSIFICATION cryoSPARC
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 1767915