☰ Navigation Tabs
Crystal structure of hen egg white lysozyme at 100 Kelvin with PEG 6000
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 38.64
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.656 α = 90 b = 78.656 β = 90 c = 37.147 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 PIXEL Bruker PHOTON II 2024-07-01 M SINGLE WAVELENGTH
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 1.499 21.815 99 0.99 18 1 19195
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 1.499 21.815 0.99
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.499 21.815 19195 946 99.683 0.179 0.1781 0.1872 0.2041 0.2124 10.205
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] -0.008 -0.008 0.015
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.859 r_dihedral_angle_6_deg 17.433 r_dihedral_angle_3_deg 12.966 r_dihedral_angle_1_deg 6.615 r_lrange_it 4.91 r_lrange_other 4.64 r_scangle_it 3.068 r_scangle_other 3.066 r_scbond_it 2.414 r_scbond_other 2.412
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 25.859 r_dihedral_angle_6_deg 17.433 r_dihedral_angle_3_deg 12.966 r_dihedral_angle_1_deg 6.615 r_lrange_it 4.91 r_lrange_other 4.64 r_scangle_it 3.068 r_scangle_other 3.066 r_scbond_it 2.414 r_scbond_other 2.412 r_angle_refined_deg 1.881 r_mcangle_it 1.542 r_mcangle_other 1.541 r_mcbond_it 1.04 r_mcbond_other 1.007 r_angle_other_deg 0.646 r_xyhbond_nbd_refined 0.299 r_nbd_refined 0.254 r_symmetry_nbd_other 0.204 r_nbtor_refined 0.185 r_nbd_other 0.138 r_symmetry_xyhbond_nbd_refined 0.138 r_chiral_restr 0.089 r_symmetry_nbtor_other 0.083 r_metal_ion_refined 0.06 r_symmetry_nbd_refined 0.037 r_gen_planes_refined 0.011 r_bond_refined_d 0.01 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 162 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement