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Crystal structure of DYRK1AA in complex with 10-Bromo-substituted 11H-indolo[3,2-c]quinolone-6-carboxylic acid inhibitor 5t
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WO6 PDB entry 2WO6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 277 2 M ammonium sulfate, 0.1 M citrate, pH 5.6, 0.2 M potassium/sodium tartrate
Crystal Properties Matthews coefficient Solvent content 2.5 50.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 100.03 α = 90 b = 69.86 β = 117.72 c = 67.9 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 2012-07-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92000 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 1.4 28.21 95 0.059 12.4 3.3 77083 10.8
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 1.4 1.48 95.4 0.268 4.4 3.3
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 2WO6 1.4 27.42 73218 3859 94.69 0.15161 0.15053 0.1507 0.17163 0.1716 RANDOM 14.565
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] -0.07 -0.35 0.06 0.24
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.013 r_dihedral_angle_4_deg 21.442 r_dihedral_angle_3_deg 10.942 r_dihedral_angle_1_deg 6.008 r_long_range_B_refined 5.277 r_long_range_B_other 5.276 r_sphericity_bonded 2.698 r_angle_refined_deg 1.667 r_scangle_other 1.305 r_scbond_it 0.866
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.013 r_dihedral_angle_4_deg 21.442 r_dihedral_angle_3_deg 10.942 r_dihedral_angle_1_deg 6.008 r_long_range_B_refined 5.277 r_long_range_B_other 5.276 r_sphericity_bonded 2.698 r_angle_refined_deg 1.667 r_scangle_other 1.305 r_scbond_it 0.866 r_scbond_other 0.865 r_mcangle_other 0.854 r_mcangle_it 0.853 r_angle_other_deg 0.771 r_mcbond_it 0.507 r_mcbond_other 0.501 r_chiral_restr 0.094 r_bond_refined_d 0.015 r_gen_planes_refined 0.01 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2783 Nucleic Acid Atoms Solvent Atoms 577 Heterogen Atoms 83
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing