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Crystal structure of murine receptor-interacting protein kinase 4 (Ripk4) D143N in complex with lestaurtinib
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 292 0.1M HEPES pH 7.5, 0.2M magnesium chloride, 10% 2-propanol, 15% ethylene glycol, 10% PEG4000
Crystal Properties Matthews coefficient Solvent content 3.64 66.24
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.825 α = 90 b = 110.247 β = 90 c = 145.536 γ = 90
Symmetry Space Group I 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 PILATUS 6M 2015-06-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.0 ALS 5.0.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.55 50.01 99.6 0.083 19.1 6 18791
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 2.55 50.01 17877 912 99.28 0.22105 0.2195 0.2205 0.25226 0.2455 RANDOM 63.227
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] 2.98 1.05 -4.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.958 r_dihedral_angle_4_deg 18.582 r_dihedral_angle_3_deg 12.721 r_long_range_B_refined 7.139 r_long_range_B_other 7.137 r_dihedral_angle_1_deg 5.643 r_mcangle_it 5.122 r_mcangle_other 5.12 r_scangle_other 4.816 r_mcbond_it 3.195
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.958 r_dihedral_angle_4_deg 18.582 r_dihedral_angle_3_deg 12.721 r_long_range_B_refined 7.139 r_long_range_B_other 7.137 r_dihedral_angle_1_deg 5.643 r_mcangle_it 5.122 r_mcangle_other 5.12 r_scangle_other 4.816 r_mcbond_it 3.195 r_mcbond_other 3.176 r_scbond_it 2.999 r_scbond_other 2.998 r_angle_refined_deg 1.232 r_angle_other_deg 0.907 r_chiral_restr 0.068 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 2042 Nucleic Acid Atoms Solvent Atoms 24 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling PHASER phasing