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Cryo-EM analysis of human H2A.Z on methylated Sat2R-P DNA (v1)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3WA9 experimental model PDB 5CPI
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 30.261 f_angle_d 0.6136 f_chiral_restr 0.0356 f_bond_d 0.0041 f_plane_restr 0.004
Sample Human H2A.Z nucleosome on methylated Sat2R-P DNA
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 566986 Reported Resolution (Å) 2.78 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (3WA9, 5CPI) 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) 50.7
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1500 Maximum Defocus (nm) 3000 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 PARTICLE SELECTION cryoSPARC 4.6.2 MODEL REFINEMENT PHENIX 1.21_5207
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details NONE 3027218