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Escherichia coli polynucleotide phosphorylase in complex with recognition site of RNase E
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 5.719 f_angle_d 0.7 f_chiral_restr 0.048 f_plane_restr 0.022 f_bond_d 0.005
Sample Polynucleotide phosphorylase in complex with recognition site from ribonuclease E
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details blotting force -4, 3 sec blot time
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 108374 Reported Resolution (Å) 2.52 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 Refinement Space REAL Refinement Protocol AB INITIO MODEL Refinement Target Overall B Value Fitting Procedure Details phenix refine and manual rebuilding using COOT
Data Acquisition Detector Type FEI FALCON IV (4k x 4k) Electron Dose (electrons/Å**2) 51.05
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 2200 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 Warp CTF CORRECTION cryoSPARC MODEL FITTING RELION MODEL REFINEMENT PHENIX 1.20.1_4487 FINAL EULER ASSIGNMENT cryoSPARC
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE