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Small-molecule inhibitors of the PDZ domain of Dishevelled proteins interrupt Wnt signalling
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F0A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 1 M ammonium sulphate, 1% PEG 3350, 0.1 M Bis-Tris pH 5.5
Crystal Properties Matthews coefficient Solvent content 2.95 58.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.608 α = 90 b = 78.608 β = 90 c = 77.818 γ = 90
Symmetry Space Group I 4 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M 2009-05-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) 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 1.58 32.04 99.5 0.0064 18.1 7.1 16954
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.58 1.62 0.069 2.9
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 2F0A 1.58 32.04 16106 848 99.52 0.171 0.1696 0.18 0.198 0.2014 RANDOM 22.926
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] -0.88 -0.88 1.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.069 r_dihedral_angle_4_deg 23.072 r_dihedral_angle_3_deg 15.026 r_dihedral_angle_1_deg 7.929 r_angle_other_deg 0.979 r_angle_refined_deg 0.969 r_rigid_bond_restr 0.591 r_chiral_restr 0.026 r_gen_planes_refined 0.019 r_gen_planes_other 0.017
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.069 r_dihedral_angle_4_deg 23.072 r_dihedral_angle_3_deg 15.026 r_dihedral_angle_1_deg 7.929 r_angle_other_deg 0.979 r_angle_refined_deg 0.969 r_rigid_bond_restr 0.591 r_chiral_restr 0.026 r_gen_planes_refined 0.019 r_gen_planes_other 0.017 r_bond_refined_d 0.001 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 671 Nucleic Acid Atoms Solvent Atoms 103 Heterogen Atoms 60
Software Software Software Name Purpose XDS data reduction XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing