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CryoEM structure of catalytic domain of human HMG-CoA reductase with its inhibitor atorvastatin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1HWK
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.816 r_dihedral_angle_3_deg 17.151 r_dihedral_angle_6_deg 15.632 r_lrange_it 12.382 r_lrange_other 12.382 r_scangle_it 10.94 r_scangle_other 10.937 r_scbond_it 7.895 r_scbond_other 7.892 r_mcangle_other 7.447
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.816 r_dihedral_angle_3_deg 17.151 r_dihedral_angle_6_deg 15.632 r_lrange_it 12.382 r_lrange_other 12.382 r_scangle_it 10.94 r_scangle_other 10.937 r_scbond_it 7.895 r_scbond_other 7.892 r_mcangle_other 7.447 r_mcangle_it 7.444 r_mcbond_it 5.902 r_mcbond_other 5.894 r_dihedral_angle_1_deg 5.496 r_angle_refined_deg 1.305 r_angle_other_deg 0.431 r_nbd_refined 0.233 r_symmetry_nbd_other 0.205 r_xyhbond_nbd_refined 0.204 r_symmetry_nbd_refined 0.196 r_nbtor_refined 0.184 r_symmetry_xyhbond_nbd_refined 0.165 r_nbd_other 0.155 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.063 r_symmetry_xyhbond_nbd_other 0.035 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_gen_planes_other 0.001 r_bond_other_d
Sample Catalytic part of hHMGCoA reductase
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 404712 Reported Resolution (Å) 2.26 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry D2
Map-Model Fitting and Refinement Id 1 (1hwk) Refinement Space REAL Refinement Protocol RIGID BODY FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 42
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 800 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 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION Topaz 0.2.4 IMAGE ACQUISITION EPU 3.5 CTF CORRECTION RELION 4.0 MODEL FITTING Coot 0.8.9 INITIAL EULER ASSIGNMENT RELION 4.0 FINAL EULER ASSIGNMENT RELION 4.0 CLASSIFICATION RELION 4.0 RECONSTRUCTION RELION 4.0 MODEL REFINEMENT REFMAC
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 3061130