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Structure of a pentameric Nanchung in complex with Afidopyropen
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5WO7
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 13.97 f_angle_d 0.565 f_chiral_restr 0.088 f_plane_restr 0.004 f_bond_d 0.003
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 481923 Reported Resolution (Å) 3.28 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C5
Map-Model Fitting and Refinement Id 1 (5wo7) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value 112.4 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 60
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2200 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 Topaz 0.24 IMAGE ACQUISITION Latitude 3.5 CTF CORRECTION cryoSPARC 4.0 MODEL FITTING Coot 0.96 INITIAL EULER ASSIGNMENT cryoSPARC 4.0 FINAL EULER ASSIGNMENT cryoSPARC 4.0 RECONSTRUCTION cryoSPARC 4.0 MODEL REFINEMENT PHENIX 1.21
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 729894