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Crystal structure of DYRK2 in complex with EHT 5372 (Compound 1)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.5 277.15 25% PEG 3350, 0.2 M NaCl and 0.1 M bis-tris, pH 5.5
Crystal Properties Matthews coefficient Solvent content 3.04 59.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 130.22 α = 90 b = 60.98 β = 105.04 c = 148.79 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 100 PIXEL DECTRIS PILATUS 2M 2012-12-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9200 Diamond I04-1
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 2.15 49.43 97.6 0.107 8.2 4 60094 26.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.27 98.7 0.578 2.1 4
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 49.43 57045 3047 97.33 0.20808 0.20564 0.2138 0.25401 0.2593 RANDOM 49.867
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] -1.8 1.67 -2.92 3.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.028 r_dihedral_angle_4_deg 21.918 r_dihedral_angle_3_deg 14.797 r_dihedral_angle_1_deg 6.243 r_long_range_B_refined 5.959 r_long_range_B_other 5.959 r_scangle_other 3.315 r_mcangle_it 2.526 r_mcangle_other 2.525 r_scbond_it 2.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.028 r_dihedral_angle_4_deg 21.918 r_dihedral_angle_3_deg 14.797 r_dihedral_angle_1_deg 6.243 r_long_range_B_refined 5.959 r_long_range_B_other 5.959 r_scangle_other 3.315 r_mcangle_it 2.526 r_mcangle_other 2.525 r_scbond_it 2.14 r_scbond_other 2.136 r_mcbond_it 1.64 r_mcbond_other 1.639 r_angle_refined_deg 1.443 r_angle_other_deg 0.823 r_chiral_restr 0.082 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 r_bond_other_d 0.004 r_gen_planes_other 0.004 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 6215 Nucleic Acid Atoms Solvent Atoms 396 Heterogen Atoms 96
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing