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Crystal structure of glucocerebrosidase with an inhibitory quinazoline modulator
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 4.5 293 20 %w/v PEG 3350
0.2 M (NH4)2SO4
0.1 M Na Acet pH=4.50
0.50 %w/v LDAO
Crystal Properties Matthews coefficient Solvent content 2.88 57.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.91 α = 90 b = 132.281 β = 95.26 c = 103.085 γ = 90
Symmetry Space Group P 1 21 1
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 2015-09-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.999 SLS X06SA
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 2.2 102.65 97.5 0.061 2.2 125199
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 2.2 2.45 98.3 0.431 2.2
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 OTHER THROUGHOUT 2.2 102.65 123670 1529 97.56 0.18907 0.18881 0.195 0.21014 0.2141 RANDOM 39.374
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] -0.39 0.41 -1.5 1.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.328 r_dihedral_angle_4_deg 16.472 r_dihedral_angle_3_deg 12.783 r_long_range_B_refined 8.683 r_long_range_B_other 8.619 r_scangle_other 7.926 r_dihedral_angle_1_deg 6.47 r_scbond_it 6.362 r_scbond_other 6.191 r_mcangle_it 6.172
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.328 r_dihedral_angle_4_deg 16.472 r_dihedral_angle_3_deg 12.783 r_long_range_B_refined 8.683 r_long_range_B_other 8.619 r_scangle_other 7.926 r_dihedral_angle_1_deg 6.47 r_scbond_it 6.362 r_scbond_other 6.191 r_mcangle_it 6.172 r_mcangle_other 6.172 r_mcbond_it 5.059 r_mcbond_other 5.057 r_angle_refined_deg 1.545 r_angle_other_deg 1.056 r_chiral_restr 0.071 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.004 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 15714 Nucleic Acid Atoms Solvent Atoms 681 Heterogen Atoms 518
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing