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Structure of ligand-free ALDH1L1 (10-formyltetrahydrofolate dehydrogenase)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2O2P
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.966 r_dihedral_angle_3_deg 13.403 r_dihedral_angle_4_deg 13.124 r_long_range_B_refined 5.567 r_long_range_B_other 5.567 r_dihedral_angle_1_deg 5.54 r_mcangle_it 2.965 r_mcangle_other 2.965 r_scangle_other 2.262 r_mcbond_it 1.602
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.966 r_dihedral_angle_3_deg 13.403 r_dihedral_angle_4_deg 13.124 r_long_range_B_refined 5.567 r_long_range_B_other 5.567 r_dihedral_angle_1_deg 5.54 r_mcangle_it 2.965 r_mcangle_other 2.965 r_scangle_other 2.262 r_mcbond_it 1.602 r_mcbond_other 1.602 r_scbond_it 1.153 r_scbond_other 1.153 r_angle_refined_deg 0.877 r_angle_other_deg 0.624 r_chiral_restr 0.036 r_bond_refined_d 0.005 r_gen_planes_refined 0.003 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 ligand-free ALDH1L1
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 86276 Reported Resolution (Å) 3.7 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry D2
Map-Model Fitting and Refinement Id 1 (2O2P) Refinement Space Refinement Protocol BACKBONE TRACE Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version MODEL FITTING Coot CLASSIFICATION RELION 3.0 RECONSTRUCTION RELION 3.0 MODEL REFINEMENT REFMAC
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION