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BEST1 + PABA intermediate state
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8D1I
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.571 r_long_range_B_refined 18.316 r_long_range_B_other 18.316 r_dihedral_angle_4_deg 18.189 r_dihedral_angle_3_deg 16.722 r_scangle_other 13.312 r_mcangle_it 9.34 r_mcangle_other 9.34 r_scbond_it 8.253 r_scbond_other 8.252
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.571 r_long_range_B_refined 18.316 r_long_range_B_other 18.316 r_dihedral_angle_4_deg 18.189 r_dihedral_angle_3_deg 16.722 r_scangle_other 13.312 r_mcangle_it 9.34 r_mcangle_other 9.34 r_scbond_it 8.253 r_scbond_other 8.252 r_mcbond_it 6.349 r_mcbond_other 6.347 r_dihedral_angle_1_deg 4.618 r_angle_other_deg 1.541 r_angle_refined_deg 1.348 r_chiral_restr 0.077 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001 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 BEST1 + PABA intermediate 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 40311 Reported Resolution (Å) 2.67 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (8D1I) 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
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 800 Maximum Defocus (nm) 1500 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 ACQUISITION Leginon
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 488010