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BEST2 + glutamate closed state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8D1E
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.503 r_long_range_B_refined 31.194 r_long_range_B_other 31.193 r_scangle_other 23.167 r_mcangle_it 18.966 r_mcangle_other 18.966 r_scbond_other 15.757 r_scbond_it 15.754 r_dihedral_angle_3_deg 15.273 r_mcbond_it 13.395
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.503 r_long_range_B_refined 31.194 r_long_range_B_other 31.193 r_scangle_other 23.167 r_mcangle_it 18.966 r_mcangle_other 18.966 r_scbond_other 15.757 r_scbond_it 15.754 r_dihedral_angle_3_deg 15.273 r_mcbond_it 13.395 r_mcbond_other 13.395 r_dihedral_angle_4_deg 12.353 r_dihedral_angle_1_deg 5.332 r_angle_other_deg 1.545 r_angle_refined_deg 1.532 r_chiral_restr 0.083 r_bond_other_d 0.03 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Sample BEST2 + glutamate closed state
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 635068 Reported Resolution (Å) 3.03 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (8D1E) Refinement Space 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) 58.8
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification 105000 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version MODEL REFINEMENT PHENIX 1.20.1_4487:
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 3529672