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CHK1 kinase domain with diazacarbazole compound 8: N-[3-(6-cyano-9H-pyrrolo[2,3-b:5,4-c']dipyridin-3-yl)phenyl]acetamide
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 2.5 50.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.989 α = 90 b = 65.906 β = 93.92 c = 57.875 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 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 20 92.9 0.082 15.8 3.5 29180 27108 -3 26.5
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 29180 25760 1348 93.79 0.26 0.25547 0.25306 0.2547 0.29882 0.2912 RANDOM 25.424
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] 0.6 0.06 1.01 -1.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.326 r_dihedral_angle_4_deg 14.857 r_dihedral_angle_3_deg 14.019 r_dihedral_angle_1_deg 6.156 r_mcangle_it 4.713 r_scangle_it 4.591 r_mcbond_it 4.007 r_scbond_it 3.651 r_angle_refined_deg 1.588 r_angle_other_deg 0.963
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.326 r_dihedral_angle_4_deg 14.857 r_dihedral_angle_3_deg 14.019 r_dihedral_angle_1_deg 6.156 r_mcangle_it 4.713 r_scangle_it 4.591 r_mcbond_it 4.007 r_scbond_it 3.651 r_angle_refined_deg 1.588 r_angle_other_deg 0.963 r_mcbond_other 0.922 r_symmetry_vdw_refined 0.253 r_symmetry_vdw_other 0.247 r_nbd_refined 0.21 r_nbd_other 0.19 r_nbtor_refined 0.176 r_symmetry_hbond_refined 0.168 r_xyhbond_nbd_refined 0.131 r_chiral_restr 0.088 r_nbtor_other 0.082 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2144 Nucleic Acid Atoms Solvent Atoms 84 Heterogen Atoms 25
Software Software Software Name Purpose JDirector data collection AMoRE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling