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Glycine ethyl ester shielding on the aromatic surfaces of lysozyme: Implication for suppression of protein aggregation
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Batch 4.5 293 0.05M sodium acetate, 1.0M glycine ethyl ester, pH 4.5, Batch, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.92 35.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.171 α = 90 b = 77.171 β = 90 c = 36.898 γ = 90
Symmetry Space Group P 43 21 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 IMAGE PLATE RIGAKU RAXIS V mirrors 2010-12-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL32B2 1.000 SPring-8 BL32B2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.17 40 99.4 36120
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.17 1.21 98.5
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 MOLECULAR REPLACEMENT THROUGHOUT 1.17 30.57 36120 1879 98.95 0.155 0.15397 0.1514 0.1748 0.1528 RANDOM 14.573
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] 0.01 0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.08 r_dihedral_angle_4_deg 12.698 r_dihedral_angle_3_deg 12.149 r_sphericity_free 10.96 r_sphericity_bonded 7.499 r_dihedral_angle_1_deg 6.125 r_scangle_it 4.699 r_scbond_it 3.418 r_mcangle_it 2.847 r_mcbond_it 1.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.08 r_dihedral_angle_4_deg 12.698 r_dihedral_angle_3_deg 12.149 r_sphericity_free 10.96 r_sphericity_bonded 7.499 r_dihedral_angle_1_deg 6.125 r_scangle_it 4.699 r_scbond_it 3.418 r_mcangle_it 2.847 r_mcbond_it 1.96 r_rigid_bond_restr 1.957 r_angle_refined_deg 1.584 r_symmetry_vdw_refined 0.352 r_nbtor_refined 0.307 r_nbd_refined 0.228 r_metal_ion_refined 0.145 r_xyhbond_nbd_refined 0.133 r_chiral_restr 0.109 r_symmetry_hbond_refined 0.106 r_bond_refined_d 0.016 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 116 Heterogen Atoms 32
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing PHENIX refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC refinement