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Cryo-EM structure of USP1-UAF1 bound to FANCI and mono-ubiquitinated FANCD2 without ML323 (consensus reconstruction)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7AY1 experimental model PDB 7ZH3 experimental model PDB 6VAE
Refinement RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 16.237 f_angle_d 0.576 f_chiral_restr 0.042 f_plane_restr 0.004 f_bond_d 0.003
Sample USP1(C90S)-UAF1 bound to FANCI and mono-ubiquitinated FANCD2 with dsDNA Sample Components Fanconi anemia group I protein, Fanconi anemia group D2 protein with ubiquitin conjugated to K561, Ubiquitin carboxyl-terminal hydrolase 1, WD repeat-containing protein 48
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details blotted for 3.0 secs before plunging
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 583484 Reported Resolution (Å) 2.8 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (7AY1, 7AY1, 7AY1, 7ZH3, 6VAE, 6VAE) Refinement Space REAL Refinement Protocol Refinement Target Overall B Value 94.9 Fitting Procedure Details
Data Acquisition Detector Type GATAN K3 (6k x 4k) Electron Dose (electrons/Å**2) 40
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TITAN KRIOS Minimum Defocus (nm) 1000 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 CTF CORRECTION cryoSPARC MODEL FITTING Coot 0.9.6 INITIAL EULER ASSIGNMENT cryoSPARC FINAL EULER ASSIGNMENT cryoSPARC RECONSTRUCTION cryoSPARC MODEL REFINEMENT PHENIX 1.19
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION 6716868