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Structure of CHK1 10-pt. mutant complex with indazole LRRK2 inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5OOP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 293 7% PEG 8000, 0.1 M MES buffer pH 6.5, 20% ethylene glycol
Crystal Properties Matthews coefficient Solvent content 2.35 47.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.92 α = 90 b = 66.11 β = 99.65 c = 54.8 γ = 90
Symmetry Space Group P 1 21 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 PILATUS3 6M 2016-07-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 1.51 41.83 90.6 0.034 0.042 0.025 0.999 15.5 2.5 44891
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.51 1.55 51.5 0.544 0.748 0.51 0.597 1.5
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 5OOP 1.55 20 40896 2054 93.55 0.1648 0.1635 0.1766 0.1893 0.2019 RANDOM 32.468
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] -1.13 0.66 -0.37 1.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.038 r_dihedral_angle_4_deg 23.418 r_dihedral_angle_3_deg 15.503 r_dihedral_angle_1_deg 5.923 r_angle_refined_deg 2.246 r_angle_other_deg 1.206 r_chiral_restr 0.192 r_bond_refined_d 0.023 r_gen_planes_refined 0.012 r_bond_other_d 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.038 r_dihedral_angle_4_deg 23.418 r_dihedral_angle_3_deg 15.503 r_dihedral_angle_1_deg 5.923 r_angle_refined_deg 2.246 r_angle_other_deg 1.206 r_chiral_restr 0.192 r_bond_refined_d 0.023 r_gen_planes_refined 0.012 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2103 Nucleic Acid Atoms Solvent Atoms 235 Heterogen Atoms 30
Software Software Software Name Purpose Aimless data scaling REFMAC refinement PDB_EXTRACT data extraction