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Crystal structure of tetragonal hen egg white lysozyme at 71.9% relative humidity
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3AW6 PDB ENTRY 3AW6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.2 293 3-8%(w/v) NaCl, 100mM Na acetate, pH 4.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.99 38.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.247 α = 90 b = 78.247 β = 90 c = 37.331 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 300.6 IMAGE PLATE RIGAKU RAXIS IV 2009-11-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU ULTRAX 18 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 2.1 50 90.1 0.046 20.8 2.6 6466 6466
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 2.1 2.18 86.7 0.254 3.3
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 (All) 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 3AW6 2.1 16.92 6146 6146 303 90.42 0.16286 0.16286 0.16 0.1632 0.21805 0.2246 RANDOM 29.916
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 33.621 r_dihedral_angle_4_deg 27.953 r_dihedral_angle_3_deg 17.344 r_dihedral_angle_1_deg 6.193 r_scangle_it 4.703 r_scbond_it 2.942 r_mcangle_it 1.86 r_angle_refined_deg 1.585 r_mcbond_it 1.024 r_nbtor_refined 0.303
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.621 r_dihedral_angle_4_deg 27.953 r_dihedral_angle_3_deg 17.344 r_dihedral_angle_1_deg 6.193 r_scangle_it 4.703 r_scbond_it 2.942 r_mcangle_it 1.86 r_angle_refined_deg 1.585 r_mcbond_it 1.024 r_nbtor_refined 0.303 r_symmetry_vdw_refined 0.281 r_nbd_refined 0.204 r_xyhbond_nbd_refined 0.188 r_chiral_restr 0.119 r_symmetry_hbond_refined 0.104 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 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_refined 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 r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 54 Heterogen Atoms 7
Software Software Software Name Purpose CrystalClear data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling