☰ Navigation Tabs
Discovery of a Novel, Potent and Selective Inhibitor of 3-Phosphoinositide Dependent Kinase (PDK1)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 293 Ammonium Sulfate, pH 7.0, VAPOR DIFFUSION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.92 57.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.213 α = 90 b = 123.213 β = 90 c = 47.424 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 93 IMAGE PLATE RIGAKU RAXIS 2006-11-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54
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 2.55 50 95.8 0.141 13.69 5.99 13179 13175 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.55 2.64 95.6 0.459 2.56 3.9 1306
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 FOURIER SYNTHESIS THROUGHOUT 2.55 50 12514 12514 659 95.87 0.19633 0.19633 0.19332 0.1942 0.2555 0.256 RANDOM 42.118
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] 0.8 0.4 0.8 -1.2
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.615 r_dihedral_angle_4_deg 25.961 r_dihedral_angle_3_deg 17.832 r_dihedral_angle_1_deg 6.366 r_scangle_it 2.996 r_scbond_it 1.963 r_angle_refined_deg 1.553 r_mcangle_it 1.475 r_mcbond_it 0.884 r_nbtor_refined 0.308
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.615 r_dihedral_angle_4_deg 25.961 r_dihedral_angle_3_deg 17.832 r_dihedral_angle_1_deg 6.366 r_scangle_it 2.996 r_scbond_it 1.963 r_angle_refined_deg 1.553 r_mcangle_it 1.475 r_mcbond_it 0.884 r_nbtor_refined 0.308 r_symmetry_hbond_refined 0.275 r_symmetry_vdw_refined 0.26 r_nbd_refined 0.211 r_xyhbond_nbd_refined 0.189 r_chiral_restr 0.105 r_bond_refined_d 0.014 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2313 Nucleic Acid Atoms Solvent Atoms 71 Heterogen Atoms 83
Software Software Software Name Purpose HKL-2000 data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing