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A New Class of Peptidomimetics Targeting the Polo-box Domain of Polo-like kinase 1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HIH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.4M K-Na tartrate
Crystal Properties Matthews coefficient Solvent content 2.04 39.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.592 α = 93.73 b = 39.651 β = 97.09 c = 39.942 γ = 102.92
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 93 CCD ADSC QUANTUM 270 2013-05-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 1.0000 PAL/PLS 7A (6B, 6C1)
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 1.8 50 97.1 0.035 20.6 2.4 20085
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 1.8 1.83 96 0.129 2.4 987
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 3HIH 1.8 39.46 20085 1026 96.28 0.161 0.1591 0.1703 0.1965 0.2072 RANDOM 20.392
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] 2.16 0.97 -1.9 -0.46 -0.58 -1.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.555 r_dihedral_angle_4_deg 15.573 r_dihedral_angle_3_deg 14.876 r_dihedral_angle_1_deg 6.418 r_mcangle_it 2.627 r_angle_refined_deg 1.981 r_mcbond_it 1.841 r_mcbond_other 1.841 r_angle_other_deg 1.413 r_chiral_restr 0.133
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.555 r_dihedral_angle_4_deg 15.573 r_dihedral_angle_3_deg 14.876 r_dihedral_angle_1_deg 6.418 r_mcangle_it 2.627 r_angle_refined_deg 1.981 r_mcbond_it 1.841 r_mcbond_other 1.841 r_angle_other_deg 1.413 r_chiral_restr 0.133 r_bond_refined_d 0.02 r_gen_planes_refined 0.012 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1823 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 1
Software Software Software Name Purpose HKL-2000 data reduction ADSC data collection REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data scaling PHASER phasing