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Structure of eIF2B-eIF2 (phosphorylated at Ser51) complex (model C)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5B04 experimental model PDB 6FYX
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 47.242 r_dihedral_angle_3_deg 17.677 r_dihedral_angle_4_deg 8.275 r_dihedral_angle_1_deg 4.146 r_angle_refined_deg 1.181 r_chiral_restr 0.078 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 47.242 r_dihedral_angle_3_deg 17.677 r_dihedral_angle_4_deg 8.275 r_dihedral_angle_1_deg 4.146 r_angle_refined_deg 1.181 r_chiral_restr 0.078 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Sample Structure of eIF2B-eIF2 (phosphorylated at Ser51) complex (model C)
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK I Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 23909 Reported Resolution (Å) 10.1 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (5B04, 6FYX) Refinement Space RECIPROCAL Refinement Protocol OTHER Refinement Target FSC Overall B Value Fitting Procedure Details
Data Acquisition Detector Type FEI FALCON III (4k x 4k) Electron Dose (electrons/Å**2) 45
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1500 Maximum Defocus (nm) 3500 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 59000 Calibrated Magnification 104478 Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION EMAN IMAGE ACQUISITION EPU CTF CORRECTION Gctf MODEL FITTING UCSF Chimera 1.1 MODEL FITTING Coot 0.8 MODEL REFINEMENT REFMAC 5.8 INITIAL EULER ASSIGNMENT RELION 2 FINAL EULER ASSIGNMENT RELION 2 CLASSIFICATION RELION 2 RECONSTRUCTION RELION 2
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 633220