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Structure of the Fanconi Anemia ID complex bound to ICL DNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3S4W
Refinement RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.436 r_dihedral_angle_4_deg 17.499 r_dihedral_angle_3_deg 17.443 r_dihedral_angle_1_deg 6.951 r_mcangle_it 4.734 r_mcangle_other 4.733 r_long_range_B_refined 3.665 r_long_range_B_other 3.665 r_mcbond_it 2.885 r_mcbond_other 2.885
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.436 r_dihedral_angle_4_deg 17.499 r_dihedral_angle_3_deg 17.443 r_dihedral_angle_1_deg 6.951 r_mcangle_it 4.734 r_mcangle_other 4.733 r_long_range_B_refined 3.665 r_long_range_B_other 3.665 r_mcbond_it 2.885 r_mcbond_other 2.885 r_angle_other_deg 1.567 r_angle_refined_deg 1.415 r_scangle_other 1.223 r_scbond_it 0.763 r_scbond_other 0.763 r_chiral_restr 0.229 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_bond_other_d 0.006 r_gen_planes_other 0.004 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Sample FANCI-FANCD2-DNA complex
Specimen Preparation Sample Aggregation State PARTICLE Vitrification Instrument Cryogen Name ETHANE Sample Vitrification Details
3D Reconstruction Reconstruction Method SINGLE PARTICLE Number of Particles 231943 Reported Resolution (Å) 3.4 Resolution Method FSC 0.143 CUT-OFF Other Details Refinement Type Symmetry Type POINT Point Symmetry C1
Map-Model Fitting and Refinement Id 1 (3S4W) Refinement Space RECIPROCAL Refinement Protocol OTHER Refinement Target Rfactor Overall B Value 169 Fitting Procedure Details
Data Acquisition Detector Type GATAN K2 SUMMIT (4k x 4k) Electron Dose (electrons/Å**2) 51
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 CTFFIND 4 MODEL FITTING O INITIAL EULER ASSIGNMENT RELION 3 MODEL REFINEMENT REFMAC 5
Image Processing CTF Correction Type CTF Correction Details Number of Particles Selected Particle Selection Details PHASE FLIPPING AND AMPLITUDE CORRECTION