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Crystal Structure of N370S Glucocerebrosidase mutant at pH 7.4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OGS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 294 0.7M Potassium Phosphate/0.7M Sodium Phosphate/0.1M HEPES, pH7.4, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 3.19 61.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.83 α = 90 b = 285.92 β = 90 c = 92 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 315r 2009-02-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 0.9765 ALS 5.0.3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.8 85 94.7 0.158 8.4 5.2 46396 31773 2 2 39.5
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.8 2.88 91.1 0.355 2.3 2.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 !OGS 2.8 50 46396 31773 1698 94.18 0.21473 0.21158 0.2118 0.27347 0.2723 RANDOM 28.113
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] 5.68 -1.67 -4.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.124 r_dihedral_angle_4_deg 19.315 r_dihedral_angle_3_deg 18.394 r_dihedral_angle_1_deg 7.05 r_scangle_it 2.915 r_scbond_it 1.747 r_angle_refined_deg 1.605 r_mcangle_it 1.195 r_mcbond_it 0.625 r_chiral_restr 0.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.124 r_dihedral_angle_4_deg 19.315 r_dihedral_angle_3_deg 18.394 r_dihedral_angle_1_deg 7.05 r_scangle_it 2.915 r_scbond_it 1.747 r_angle_refined_deg 1.605 r_mcangle_it 1.195 r_mcbond_it 0.625 r_chiral_restr 0.103 r_bond_refined_d 0.015 r_gen_planes_refined 0.007 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 7857 Nucleic Acid Atoms Solvent Atoms 42 Heterogen Atoms 109
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling