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Polo-like kinase I Polo-box domain in complex with MQSpTPL phosphopeptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UMW 1UMW (chain A)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 100mM HEPES, 1.0-2.0M (NH4)2SO4, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.33 47.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.184 α = 90 b = 77.057 β = 90 c = 88.975 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 2009-10-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9537 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.4 58.38 97.7 49803 1
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 1UMW (chain A) 1.4 58.25 48107 2578 98.97 0.21254 0.21165 0.2216 0.22958 0.2286 RANDOM 20.46
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] -0.41 -0.43 0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.202 r_dihedral_angle_4_deg 14.192 r_dihedral_angle_3_deg 13.874 r_dihedral_angle_1_deg 5.376 r_scangle_it 1.971 r_scbond_it 1.215 r_angle_refined_deg 1.048 r_mcangle_it 0.824 r_mcbond_it 0.422 r_chiral_restr 0.073
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.202 r_dihedral_angle_4_deg 14.192 r_dihedral_angle_3_deg 13.874 r_dihedral_angle_1_deg 5.376 r_scangle_it 1.971 r_scbond_it 1.215 r_angle_refined_deg 1.048 r_mcangle_it 0.824 r_mcbond_it 0.422 r_chiral_restr 0.073 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1881 Nucleic Acid Atoms Solvent Atoms 270 Heterogen Atoms 16
Software Software Software Name Purpose MOLREP phasing REFMAC refinement