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ALC1/CHD1L in an intermediate conformation, bound to a PARylated nucleosome
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8B0A in silico model AlphaFold AF-Q86WJ1-F1-v4
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 23.0254 f_angle_d 1.2917 f_chiral_restr 0.0722 f_plane_restr 0.0161 f_bond_d 0.0079
Sample ALC1/CHD1L bound to a PARylated nucleosome
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details 3 uL were applied on grid and immediately blotted for 2.5 s at blot force 0.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 15740 Reported Resolution (Å) 6.6 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT
Map-Model Fitting and Refinement Id 1 (8B0A, 8B0A, 8B0A, 8B0A, 8B0A, 8B0A, 8B0A, 8B0A, 8B0A, 8B0A) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 45
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) 1000 Maximum Defocus (nm) 2500 Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode BRIGHT FIELD Specimen Holder Model FEI TITAN KRIOS AUTOGRID HOLDER Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version PARTICLE SELECTION cryoSPARC 4.7.1 IMAGE ACQUISITION EPU 2.6.1 CTF CORRECTION cryoSPARC 4.7.1 MODEL FITTING UCSF ChimeraX 1.10.1 MODEL FITTING ISOLDE 1.10.1 MODEL REFINEMENT PHENIX 1.21.2-5419 INITIAL EULER ASSIGNMENT cryoSPARC 4.7.1 FINAL EULER ASSIGNMENT cryoSPARC 4.7.1 CLASSIFICATION cryoSPARC 4.7.1 RECONSTRUCTION cryoSPARC 4.7.1
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 2001174