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Crystal structure of hen egg white lysozyme soaked with 100mM RhCl3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 193L PDB ENTRY 193L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.5 293 sodium chloride, pH 4.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.98 37.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.912 α = 90 b = 77.912 β = 90 c = 37.426 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 VII 2008-11-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.5418
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 1.55 80 99.8 0.051 23.1 17274 18.832
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) 1.55 1.61 100 0.26 23.2
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 193L 1.55 16.49 16354 871 99.94 0.20007 0.19859 0.197 0.22869 0.2317 RANDOM 19.117
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.278 r_dihedral_angle_4_deg 13.89 r_dihedral_angle_3_deg 11.794 r_sphericity_free 9.526 r_dihedral_angle_1_deg 5.757 r_scangle_it 3.39 r_scbond_it 2.131 r_mcangle_it 1.426 r_angle_refined_deg 1.193 r_mcbond_it 0.769
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.278 r_dihedral_angle_4_deg 13.89 r_dihedral_angle_3_deg 11.794 r_sphericity_free 9.526 r_dihedral_angle_1_deg 5.757 r_scangle_it 3.39 r_scbond_it 2.131 r_mcangle_it 1.426 r_angle_refined_deg 1.193 r_mcbond_it 0.769 r_nbtor_refined 0.3 r_symmetry_vdw_refined 0.243 r_symmetry_hbond_refined 0.224 r_nbd_refined 0.215 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.094 r_metal_ion_refined 0.083 r_bond_refined_d 0.009 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1009 Nucleic Acid Atoms Solvent Atoms 98 Heterogen Atoms 16
Software Software Software Name Purpose CrystalClear data collection MOLREP phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling