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The structure of the polo-box domain (PBD) of polo-like kinase 1 (Plk1) in complex with 3-(1-benzothiophen-2-yl)propanoyl-derivatized DPPLHSpTA peptide
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 0.1 M sodium acetate, 1.0 M LiCl, 30% PEG 6000, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.01 38.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.873 α = 85.84 b = 36.302 β = 77.21 c = 47.474 γ = 68.24
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray CCD Bruker Platinum 135 2011-03-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR
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 2.75 46.29 96.2 5636 5422 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 3P2Z THROUGHOUT 2.75 46.29 5084 246 94.57 0.26984 0.26691 0.2672 0.32984 0.3216 RANDOM 12.783
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.125 r_dihedral_angle_3_deg 16.286 r_dihedral_angle_4_deg 11.497 r_dihedral_angle_1_deg 4.98 r_angle_refined_deg 2.765 r_scangle_it 0.502 r_mcbond_it 0.446 r_scbond_it 0.285 r_mcangle_it 0.249 r_chiral_restr 0.173
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.125 r_dihedral_angle_3_deg 16.286 r_dihedral_angle_4_deg 11.497 r_dihedral_angle_1_deg 4.98 r_angle_refined_deg 2.765 r_scangle_it 0.502 r_mcbond_it 0.446 r_scbond_it 0.285 r_mcangle_it 0.249 r_chiral_restr 0.173 r_bond_refined_d 0.026 r_gen_planes_refined 0.004 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 1833 Nucleic Acid Atoms Solvent Atoms 32 Heterogen Atoms 6
Software Software Software Name Purpose PROTEUM PLUS data collection MOLREP phasing REFMAC refinement PROTEUM PLUS data reduction PROTEUM PLUS data scaling