☰ Navigation Tabs
Crystal structure of hen egg white lysozyme at 225 Kelvin (Triplicate)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3A8Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 295 1.2 M NaCl and 100 mM AcONa pH 4.6
Crystal Properties Matthews coefficient Solvent content 2.07 40.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.487 α = 90 b = 79.487 β = 90 c = 37.495 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 225 CMOS BRUKER PHOTON 100 2020-11-04 L LAUE
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER TURBO X-RAY SOURCE 1.54184
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) CC (Half) 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 1.5 22.5 99.58 0.827 5.87 1.89 19769
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 22.5 0.827
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 3A8Z 1.5 22.498 19769 1022 99.577 0.173 0.1711 0.2071 0.1957 14.719
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] -0.001 -0.001 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.921 r_dihedral_angle_4_deg 18.393 r_dihedral_angle_3_deg 12.788 r_dihedral_angle_1_deg 6.601 r_lrange_it 4.943 r_lrange_other 4.937 r_scangle_it 4.097 r_scangle_other 4.094 r_scbond_it 2.685 r_scbond_other 2.683
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.921 r_dihedral_angle_4_deg 18.393 r_dihedral_angle_3_deg 12.788 r_dihedral_angle_1_deg 6.601 r_lrange_it 4.943 r_lrange_other 4.937 r_scangle_it 4.097 r_scangle_other 4.094 r_scbond_it 2.685 r_scbond_other 2.683 r_mcangle_other 1.902 r_mcangle_it 1.9 r_angle_refined_deg 1.838 r_angle_other_deg 1.591 r_mcbond_it 1.279 r_mcbond_other 1.271 r_nbd_refined 0.24 r_symmetry_nbd_other 0.197 r_nbtor_refined 0.174 r_nbd_other 0.107 r_xyhbond_nbd_refined 0.105 r_chiral_restr 0.099 r_symmetry_nbtor_other 0.087 r_symmetry_nbd_refined 0.086 r_symmetry_xyhbond_nbd_refined 0.078 r_metal_ion_refined 0.028 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 82 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement SAINT data reduction