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Crystal structure of CHK1 in complex with prexasertib
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1NVS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.05 M Sodium acetate, 60 % v/v Ethanol, 1.5 % w/v PEG 6000
Crystal Properties Matthews coefficient Solvent content 2.39 48.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.4 α = 90 b = 64.82 β = 102.77 c = 53.99 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 EIGER X 16M 2021-05-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.03320 PETRA III, DESY P11
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 1.68 44.32 97.9 0.05 0.054 0.02 1 19.5 7 34133
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 1.68 1.71 0.923 0.994 0.365 0.873 2.3
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 1.68 44.32 32446 1674 97.81 0.1676 0.1657 0.1692 0.2043 0.2069 RANDOM 29.404
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] 0.41 -1.83 -0.72 1.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.528 r_dihedral_angle_4_deg 19.475 r_dihedral_angle_3_deg 14.325 r_dihedral_angle_1_deg 6.191 r_mcangle_it 3.498 r_mcbond_it 2.389 r_mcbond_other 2.379 r_angle_refined_deg 1.737 r_angle_other_deg 1.379 r_chiral_restr 0.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.528 r_dihedral_angle_4_deg 19.475 r_dihedral_angle_3_deg 14.325 r_dihedral_angle_1_deg 6.191 r_mcangle_it 3.498 r_mcbond_it 2.389 r_mcbond_other 2.379 r_angle_refined_deg 1.737 r_angle_other_deg 1.379 r_chiral_restr 0.089 r_bond_refined_d 0.011 r_gen_planes_refined 0.01 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2254 Nucleic Acid Atoms Solvent Atoms 181 Heterogen Atoms 136
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction Aimless data scaling PHASER phasing