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Crystal structure of hen egg white lysozyme soaked with 5mM 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 37.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.122 α = 90 b = 78.122 β = 90 c = 37.151 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 2009-02-02 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 99.6 0.047 20.9 17245 19.459
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 0.247 22.7
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 PDB ENTRY 193L 1.55 18.41 16328 873 99.61 0.18698 0.18598 0.20657 0.2334 RANDOM 17.814
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 33.252 r_sphericity_free 12.679 r_dihedral_angle_3_deg 11.632 r_dihedral_angle_4_deg 9.536 r_dihedral_angle_1_deg 5.633 r_scangle_it 3.297 r_scbond_it 2.067 r_mcangle_it 1.274 r_angle_refined_deg 1.214 r_mcbond_it 0.677
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.252 r_sphericity_free 12.679 r_dihedral_angle_3_deg 11.632 r_dihedral_angle_4_deg 9.536 r_dihedral_angle_1_deg 5.633 r_scangle_it 3.297 r_scbond_it 2.067 r_mcangle_it 1.274 r_angle_refined_deg 1.214 r_mcbond_it 0.677 r_nbtor_refined 0.299 r_symmetry_vdw_refined 0.225 r_nbd_refined 0.21 r_symmetry_hbond_refined 0.194 r_metal_ion_refined 0.101 r_xyhbond_nbd_refined 0.098 r_chiral_restr 0.093 r_bond_refined_d 0.009 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 999 Nucleic Acid Atoms Solvent Atoms 109 Heterogen Atoms 9
Software Software Software Name Purpose CrystalClear data collection MOLREP phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling