☰ Navigation Tabs
Crystal structure of IRAK4 kinase domain complexed with staurosporine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2OIB PDB ENTRY 2OIB
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 2.99 58.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 153.894 α = 90 b = 141.321 β = 122.27 c = 88.263 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 210 2005-08-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 1.0 ALS 5.0.3
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 2.4 50 99.6 7.1 16 3.7 62496 3 58.1
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) 2.4 2.49 96.7 0.511 2.1 2.9 6058
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 DIFFERENCE FOURIER THROUGHOUT PDB ENTRY 2OIB 2.4 48.17 59030 3147 99.86 0.22567 0.22285 0.2781 RANDOM 64.797
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] 3.21 1.11 -0.87 -1.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.937 r_dihedral_angle_4_deg 22.439 r_dihedral_angle_3_deg 16.899 r_dihedral_angle_1_deg 5.516 r_scangle_it 2.304 r_angle_refined_deg 1.762 r_scbond_it 1.347 r_mcangle_it 1.302 r_mcbond_it 0.732 r_nbtor_refined 0.298
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.937 r_dihedral_angle_4_deg 22.439 r_dihedral_angle_3_deg 16.899 r_dihedral_angle_1_deg 5.516 r_scangle_it 2.304 r_angle_refined_deg 1.762 r_scbond_it 1.347 r_mcangle_it 1.302 r_mcbond_it 0.732 r_nbtor_refined 0.298 r_symmetry_hbond_refined 0.25 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.155 r_xyhbond_nbd_refined 0.152 r_chiral_restr 0.141 r_bond_refined_d 0.011 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8893 Nucleic Acid Atoms Solvent Atoms 269 Heterogen Atoms 140
Software Software Software Name Purpose REFMAC refinement ADSC data collection DENZO data reduction SCALEPACK data scaling