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Discovery of IRAK4 Inhibitor 16
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details other Other inhouse structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.9 293 0.1M sodium acetate buffer, 2.13-2.145M sodium malonate
Crystal Properties Matthews coefficient Solvent content 2.64 53.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.2 α = 90 b = 117.5 β = 90 c = 136.6 γ = 90
Symmetry Space Group I 2 2 2
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 PILATUS 6M 2013-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.9184 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 2.34 48.95 99.8 0.095 0.999 16.25 5.9 178315
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.34 2.48 99.6 0.83 0.805
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE inhouse structure 2.35 48.893 29596 888 99.865 0.214 0.2123 0.2183 0.2601 0.2601 55.616
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] -1.049 2.564 -1.516
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.695 r_dihedral_angle_4_deg 20.318 r_dihedral_angle_3_deg 14.809 r_lrange_it 7.105 r_lrange_other 7.095 r_dihedral_angle_1_deg 5.449 r_scangle_it 4.188 r_scangle_other 4.187 r_mcangle_it 3.813 r_mcangle_other 3.813
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.695 r_dihedral_angle_4_deg 20.318 r_dihedral_angle_3_deg 14.809 r_lrange_it 7.105 r_lrange_other 7.095 r_dihedral_angle_1_deg 5.449 r_scangle_it 4.188 r_scangle_other 4.187 r_mcangle_it 3.813 r_mcangle_other 3.813 r_scbond_it 2.379 r_scbond_other 2.379 r_mcbond_it 2.187 r_mcbond_other 2.186 r_angle_refined_deg 1.157 r_angle_other_deg 1.052 r_nbd_refined 0.164 r_symmetry_nbd_other 0.161 r_nbd_other 0.154 r_nbtor_refined 0.148 r_symmetry_xyhbond_nbd_refined 0.11 r_xyhbond_nbd_refined 0.105 r_symmetry_nbd_refined 0.105 r_symmetry_nbtor_other 0.073 r_chiral_restr 0.036 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4416 Nucleic Acid Atoms Solvent Atoms 94 Heterogen Atoms 76
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing