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Structural analysis of checkpoint kinase 2 in complex with inhibitor PV1322
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2W0J PDB ENTRY 2W0J
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.8 0.1M HEPES PH 7.8, 0.2M MAGNESIUM NITRATE, 14%W/V PEG 3350, 16%V/V ETHYLENE GLYCOL
Crystal Properties Matthews coefficient Solvent content 3 59.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.61 α = 90 b = 90.61 β = 90 c = 93.555 γ = 120
Symmetry Space Group P 32 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 CCD MARRESEARCH MX-300 2007-10-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID APS 22-ID
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 1.89 50 97.7 0.09 14 5 34829 2
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 1.89 1.97 99.4 0.6 4.9 4.9
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 2W0J 1.89 50 33074 1753 97.31 0.19927 0.19743 0.2255 0.23422 0.261 RANDOM 41.987
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] 0.12 0.06 0.12 -0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.902 r_dihedral_angle_4_deg 18.557 r_dihedral_angle_3_deg 13.808 r_dihedral_angle_1_deg 5.131 r_scangle_it 3.874 r_scbond_it 2.423 r_mcangle_it 1.604 r_angle_refined_deg 1.402 r_mcbond_it 0.904 r_chiral_restr 0.099
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.902 r_dihedral_angle_4_deg 18.557 r_dihedral_angle_3_deg 13.808 r_dihedral_angle_1_deg 5.131 r_scangle_it 3.874 r_scbond_it 2.423 r_mcangle_it 1.604 r_angle_refined_deg 1.402 r_mcbond_it 0.904 r_chiral_restr 0.099 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2251 Nucleic Acid Atoms Solvent Atoms 223 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction SCALEPACK data scaling MOLREP phasing