☰ Navigation Tabs
Crystal structure of DYRK1A in complex with 10-Iodo-substituted 11H-indolo[3,2-c]quinoline-6-carboxylic acid inhibitor 5j
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 8.8 277 37% PEG400, 0.2 M lithium sulfate, 0.1 M Tris, pH 8.8
Crystal Properties Matthews coefficient Solvent content 3.27 62.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 265.472 α = 90 b = 65.528 β = 114.6 c = 139.365 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 2013-10-31 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 2.58 48.41 99.6 0.066 16.6 6.5 68848 56.1
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 2.58 2.72 99.9 0.884 2.2 6.6
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 2.58 48.41 65362 3484 99.5 0.19343 0.1919 0.195 0.22203 0.2199 RANDOM 78.835
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] 0.16 -0.54 -1.04 0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.785 r_dihedral_angle_4_deg 21.001 r_dihedral_angle_3_deg 14.744 r_long_range_B_refined 8.552 r_long_range_B_other 8.551 r_dihedral_angle_1_deg 6.216 r_scangle_other 5.729 r_mcangle_it 4.799 r_mcangle_other 4.799 r_scbond_it 3.712
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.785 r_dihedral_angle_4_deg 21.001 r_dihedral_angle_3_deg 14.744 r_long_range_B_refined 8.552 r_long_range_B_other 8.551 r_dihedral_angle_1_deg 6.216 r_scangle_other 5.729 r_mcangle_it 4.799 r_mcangle_other 4.799 r_scbond_it 3.712 r_scbond_other 3.712 r_mcbond_it 3.034 r_mcbond_other 3.034 r_angle_refined_deg 1.412 r_angle_other_deg 0.853 r_chiral_restr 0.065 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.005 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 11342 Nucleic Acid Atoms Solvent Atoms 247 Heterogen Atoms 222
Software Software Software Name Purpose REFMAC refinement XDS data scaling SCALA data scaling PHASER phasing