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Cryo-EM structure of apo Aspergillus terreus glutamate dehydrogenase (AtGDH) in the partially closed conformation (form 2)
Refinement RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 53.849 r_long_range_B_other 53.849 r_scangle_other 36.606 r_mcangle_other 33.559 r_mcangle_it 33.558 r_scbond_it 25.018 r_scbond_other 25.016 r_mcbond_it 23.864 r_mcbond_other 23.863 r_dihedral_angle_3_deg 20.004
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 53.849 r_long_range_B_other 53.849 r_scangle_other 36.606 r_mcangle_other 33.559 r_mcangle_it 33.558 r_scbond_it 25.018 r_scbond_other 25.016 r_mcbond_it 23.864 r_mcbond_other 23.863 r_dihedral_angle_3_deg 20.004 r_dihedral_angle_2_deg 7.905 r_dihedral_angle_1_deg 4.337 r_angle_refined_deg 1.314 r_angle_other_deg 0.461 r_chiral_restr 0.068 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_gen_planes_other 0.001 r_bond_other_d r_dihedral_angle_4_deg 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 apo form of Aspergillus terreus glutamate dehydrogenase
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 108318 Reported Resolution (Å) 3.25 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry D3
Map-Model Fitting and Refinement Id 1 Refinement Space Refinement Protocol Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 25.75
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 2100 Maximum Defocus (nm) 3300 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 REFINEMENT REFMAC 5.8.0352 MODEL REFINEMENT PHENIX
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE