☰ Navigation Tabs
Crystal structure of WRN in complex with (R)-11 (GSK4766470)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6YHR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277.15 10% PEG 6000, 0.1 M HEPES pH 7.0
Crystal Properties Matthews coefficient Solvent content 2.23 44.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.184 α = 90 b = 58.31 β = 90 c = 132.998 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER X 16M 2022-10-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0000 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.15 50 89.9 0.088 0.1 0.046 0.983 12.7 4.4 23142
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.19 85.3 0.646 0.718 0.306 0.821 2.3 4.5
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.15 39.34 21940 1156 89.84 0.19636 0.19301 0.2035 0.25839 0.2625 RANDOM 45.933
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 1.34 -0.66 -0.68
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.293 r_dihedral_angle_2_deg 9.809 r_long_range_B_refined 9.376 r_long_range_B_other 9.374 r_dihedral_angle_1_deg 8.294 r_scangle_other 7.425 r_mcangle_it 5.57 r_mcangle_other 5.569 r_scbond_it 5.003 r_scbond_other 5.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.293 r_dihedral_angle_2_deg 9.809 r_long_range_B_refined 9.376 r_long_range_B_other 9.374 r_dihedral_angle_1_deg 8.294 r_scangle_other 7.425 r_mcangle_it 5.57 r_mcangle_other 5.569 r_scbond_it 5.003 r_scbond_other 5.002 r_mcbond_it 3.98 r_mcbond_other 3.979 r_angle_refined_deg 1.195 r_angle_other_deg 0.391 r_chiral_restr 0.058 r_bond_refined_d 0.012 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3330 Nucleic Acid Atoms Solvent Atoms 95 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement HKL-2000 data scaling HKL-2000 data reduction PHASER phasing