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Crystal structure of IRAK4 kinase domain apo form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UWH PDB ENTRY 1UWH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 2.3M sodium malonate, 0.1M sodium acetate, 0.01M DTT, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.65 53.51
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 142.066 α = 90 b = 138.75 β = 123.95 c = 87.942 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 200 CCD ADSC QUANTUM 315 2005-04-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-1 0.97946 SSRL BL9-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) 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 50 92.6 9.3 9.1 3.5 87970 3 28.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.07 62.3 0.51 2.2 2.4 4252
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 (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1UWH 2 48.56 83552 4407 92.46 0.22351 0.2211 0.26981 RANDOM 35.108
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] 2.33 0.99 -1.77 0.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.977 r_dihedral_angle_4_deg 19.271 r_dihedral_angle_3_deg 14.303 r_dihedral_angle_1_deg 5.021 r_scangle_it 1.835 r_scbond_it 1.161 r_angle_refined_deg 1.073 r_mcangle_it 1.002 r_mcbond_it 0.574 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.977 r_dihedral_angle_4_deg 19.271 r_dihedral_angle_3_deg 14.303 r_dihedral_angle_1_deg 5.021 r_scangle_it 1.835 r_scbond_it 1.161 r_angle_refined_deg 1.073 r_mcangle_it 1.002 r_mcbond_it 0.574 r_nbtor_refined 0.295 r_symmetry_vdw_refined 0.186 r_nbd_refined 0.184 r_xyhbond_nbd_refined 0.146 r_symmetry_hbond_refined 0.143 r_chiral_restr 0.074 r_bond_refined_d 0.008 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9031 Nucleic Acid Atoms Solvent Atoms 716 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement ADSC data collection DENZO data reduction SCALEPACK data scaling PHASER phasing