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CryoEM structure of the human INO80 core- H2A.Z nucleosome complex
Refinement RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 44.537 r_long_range_B_other 44.537 r_scangle_other 34.807 r_mcangle_it 23.826 r_mcangle_other 23.826 r_scbond_it 21.007 r_scbond_other 21.007 r_mcbond_it 15.127 r_mcbond_other 15.127 r_dihedral_angle_3_deg 13.107
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 44.537 r_long_range_B_other 44.537 r_scangle_other 34.807 r_mcangle_it 23.826 r_mcangle_other 23.826 r_scbond_it 21.007 r_scbond_other 21.007 r_mcbond_it 15.127 r_mcbond_other 15.127 r_dihedral_angle_3_deg 13.107 r_dihedral_angle_1_deg 7.697 r_dihedral_angle_2_deg 7.576 r_angle_refined_deg 1.952 r_angle_other_deg 0.645 r_chiral_restr 0.099 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 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 Human INO80 remodeller with H2A.Z containing nucleosomes Sample Components Human INO80 remodeller Histone Octamer Synthetic deoxyribonucleic acid
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument LEICA EM GP Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 94892 Reported Resolution (Å) 3.43 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 Refinement Space RECIPROCAL Refinement Protocol FLEXIBLE FIT Refinement Target MAXIMUM LIKELIHOOD WITH PHASES Overall B Value 134.96 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 1
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1100 Maximum Defocus (nm) 2900 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS 2.7 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 PARTICLE SELECTION cryoSPARC 4.5.3 CTF CORRECTION cryoSPARC 4.5.3 MODEL FITTING Coot 0.9.8.93 MODEL FITTING ISOLDE 1.8 MODEL REFINEMENT REFMAC 5.8.0425 INITIAL EULER ASSIGNMENT cryoSPARC 4.5.3 FINAL EULER ASSIGNMENT cryoSPARC 4.5.3 RECONSTRUCTION cryoSPARC 4.5.3
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 12419217 Minimum particle diameter (A) = 120
Maximum particle diameter (A) = 240