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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 30% PEG 8000, 0.2 M ammonium sulphate, 0.1 M MES pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.59 52.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.334 α = 90 b = 76.334 β = 90 c = 72.434 γ = 90
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 2009-06-10 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 1.43 30.88 100 0.044 22.1 5.4 38358
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 1.43 1.47 100 0.0579 3.2 5.3
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 1.43 30.88 36438 1918 99.98 0.1318 0.1295 0.1301 0.1754 0.1771 RANDOM 25.244
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] -1.26 -1.26 2.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.025 r_dihedral_angle_4_deg 17.952 r_dihedral_angle_3_deg 14.077 r_dihedral_angle_1_deg 7.283 r_rigid_bond_restr 6.995 r_angle_refined_deg 1.37 r_angle_other_deg 1.306 r_chiral_restr 0.075 r_gen_planes_refined 0.019 r_gen_planes_other 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.025 r_dihedral_angle_4_deg 17.952 r_dihedral_angle_3_deg 14.077 r_dihedral_angle_1_deg 7.283 r_rigid_bond_restr 6.995 r_angle_refined_deg 1.37 r_angle_other_deg 1.306 r_chiral_restr 0.075 r_gen_planes_refined 0.019 r_gen_planes_other 0.01 r_bond_refined_d 0.008 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1312 Nucleic Acid Atoms Solvent Atoms 249 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PDB_EXTRACT data extraction PHASER phasing