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CHK1 kinase domain with diazacarbazole compound 7: 3-(2-hydroxyphenyl)-9H-pyrrolo[2,3-b:5,4-c']dipyridine-6-carbonitrile
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZYS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 292 HEPES, isopropanol, PEG 8000, pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.49 50.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.902 α = 90 b = 65.73 β = 94.03 c = 57.787 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 110 CCD RIGAKU SATURN 944+ 2008-11-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.84 50 99.4 0.049 26.3 3.6 28684 28518 -3 24
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1ZYS 1.85 20 -3 28684 27091 1427 99.38 0.19 0.18414 0.18242 0.1886 0.21559 0.2173 RANDOM 30.096
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] -0.85 0.18 0.91 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.106 r_dihedral_angle_3_deg 12.458 r_dihedral_angle_4_deg 12.147 r_dihedral_angle_1_deg 5.371 r_scangle_it 3.808 r_mcangle_it 3.45 r_mcbond_it 3.012 r_scbond_it 2.814 r_angle_refined_deg 1.316 r_angle_other_deg 0.859
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.106 r_dihedral_angle_3_deg 12.458 r_dihedral_angle_4_deg 12.147 r_dihedral_angle_1_deg 5.371 r_scangle_it 3.808 r_mcangle_it 3.45 r_mcbond_it 3.012 r_scbond_it 2.814 r_angle_refined_deg 1.316 r_angle_other_deg 0.859 r_mcbond_other 0.521 r_symmetry_vdw_other 0.281 r_symmetry_vdw_refined 0.204 r_nbd_refined 0.198 r_nbd_other 0.184 r_nbtor_refined 0.174 r_symmetry_hbond_refined 0.145 r_xyhbond_nbd_refined 0.13 r_nbtor_other 0.082 r_chiral_restr 0.069 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2101 Nucleic Acid Atoms Solvent Atoms 149 Heterogen Atoms 22
Software Software Software Name Purpose JDirector data collection AMoRE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling