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HEWL lysozyme, crystallized from KCl solution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4WLD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 KCl
Crystal Properties Matthews coefficient Solvent content 2 38.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.66 α = 90 b = 78.66 β = 90 c = 37.061 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 CCD MAR CCD 165 mm 2018-05-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON KURCHATOV SNC BEAMLINE K4.4 0.80241 KURCHATOV SNC K4.4
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 1.35 27.81 98.8 0.091 16.4 7.9 26135
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 1.35 1.385
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4WLD 1.35 27.81 24493 1334 98.8 0.17042 0.16797 0.21647 0.211 RANDOM 14.985
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 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.03 r_sphericity_free 21.664 r_dihedral_angle_4_deg 13.764 r_dihedral_angle_3_deg 13.314 r_sphericity_bonded 6.217 r_dihedral_angle_1_deg 5.991 r_rigid_bond_restr 3.391 r_long_range_B_refined 2.615 r_long_range_B_other 2.39 r_scangle_other 2.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.03 r_sphericity_free 21.664 r_dihedral_angle_4_deg 13.764 r_dihedral_angle_3_deg 13.314 r_sphericity_bonded 6.217 r_dihedral_angle_1_deg 5.991 r_rigid_bond_restr 3.391 r_long_range_B_refined 2.615 r_long_range_B_other 2.39 r_scangle_other 2.001 r_scbond_it 1.79 r_scbond_other 1.788 r_mcangle_other 1.748 r_mcangle_it 1.745 r_angle_refined_deg 1.585 r_mcbond_it 1.385 r_mcbond_other 1.38 r_angle_other_deg 1.129 r_chiral_restr 0.124 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.002 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1000 Nucleic Acid Atoms Solvent Atoms 134 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing