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Cryo-EM structure of NCP-THF2(+1)-UV-DDB class B
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4ZUX experimental model PDB 5Y0C experimental model PDB 4E54 experimental model PDB 3EI4
Sample UV-DDB bound to a THF2 (+1) containing nucleosome class B Sample Components DNA DNA damage-binding protein 1(2), DNA damage-binding protein 2 Histone H3.1, Histone H2A, Histone H2B Histone H4
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 48925 Reported Resolution (Å) 4.8 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (4ZUX, 4ZUX, 5Y0C, 5Y0C, 5Y0C, 5Y0C, 5Y0C, 5Y0C, 5Y0C, 5Y0C, 4E54, 3EI4) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Cross-correlation coefficient 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 CTF CORRECTION Gctf MODEL FITTING Coot 0.8.9.1 RECONSTRUCTION RELION 2 MODEL REFINEMENT REFMAC 5.8.0238 MODEL REFINEMENT PHENIX dev-3318
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION