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Crystal structure of the catalytic core of E3 ligase HOIP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 291 20% PEG 12000, 800 mM LiCl, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.25 45.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.209 α = 101.39 b = 47.767 β = 90.12 c = 111.145 γ = 98.92
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 77 PIXEL DECTRIS PILATUS 6M 2012-05-18 SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.9798 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 2.45 29.6 91.7 0.108 10.07 3.33 32557 30946 -3 49.188
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.45 2.59 71 0.473 2.64
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 (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 SAD THROUGHOUT 2.45 29.6 28941 2008 95.01 0.248 0.2088 0.2065 0.2093 0.2427 0.2422 RANDOM 49.3476
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] 0.13 0.31 0.29 -0.26 -0.07 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.147 r_dihedral_angle_4_deg 22.209 r_dihedral_angle_3_deg 20.397 r_dihedral_angle_1_deg 6.443 r_mcangle_it 6.357 r_mcbond_it 4.134 r_mcbond_other 4.134 r_angle_refined_deg 1.79 r_angle_other_deg 1.427 r_chiral_restr 0.109
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.147 r_dihedral_angle_4_deg 22.209 r_dihedral_angle_3_deg 20.397 r_dihedral_angle_1_deg 6.443 r_mcangle_it 6.357 r_mcbond_it 4.134 r_mcbond_other 4.134 r_angle_refined_deg 1.79 r_angle_other_deg 1.427 r_chiral_restr 0.109 r_bond_refined_d 0.013 r_gen_planes_refined 0.009 r_bond_other_d 0.007 r_gen_planes_other 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5852 Nucleic Acid Atoms Solvent Atoms 43 Heterogen Atoms 18
Software Software Software Name Purpose XSCALE data scaling PHASER phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction XDS data scaling XDS data reduction PHENIX phasing