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Cryo-EM structure of the regulatory linker of ALC1 bound to the nucleosome's acidic patch: nucleosome class.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3LZ0 experimental model PDB 1ZLA
Sample Crosslinked complex of ALC1 regulatory linker and the nucleosome Sample Components Histones DNA Chromodomain-helicase-DNA-binding protein 1-like
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument FEI VITROBOT MARK IV Cryogen Name ETHANE Sample Vitrification Details Blot time 2.5 s, blot force 0.
Two sample applications and blots were performed before vitrification.
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 636544 Reported Resolution (Å) 2.5 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (3LZ0, 3LZ0, 3LZ0, 3LZ0, 3LZ0, 3LZ0, 3LZ0, 3LZ0, 3LZ0, 3LZ0, 1ZLA) Refinement Space REAL Refinement Protocol FLEXIBLE FIT Refinement Target Real-space CC between model and map Overall B Value Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 BIOQUANTUM (6k x 4k) Electron Dose (electrons/Å**2) 50.4
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model TFS KRIOS Minimum Defocus (nm) Maximum Defocus (nm) 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 Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 300 Imaging Details
EM Software Task Software Package Version IMAGE ACQUISITION EPU 2.6.1 CTF CORRECTION Gctf 1.18b2 MODEL FITTING UCSF Chimera 0.93 INITIAL EULER ASSIGNMENT RELION 3.1 FINAL EULER ASSIGNMENT RELION 3.1 CLASSIFICATION RELION 3.1 RECONSTRUCTION RELION 3.1 MODEL REFINEMENT ISOLDE 1.0b5
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 2968853 Particles were picked with Warp's neural network picker, using model BoxNet2Mask_20180918.