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X-ray structure of lysozyme when is treated with Cs2[V(V)2O4(mal)2]2H2O at 310K
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 193L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4 310 1.1 M sodium chloride and 0.1 M sodium acetate pH 4.0
Crystal Properties Matthews coefficient Solvent content 2.04 39.74
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.1 α = 90 b = 79.1 β = 90 c = 37.4 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 310 PIXEL DECTRIS PILATUS 6M 2024-11-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 1.00 ELETTRA 11.2C
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 2.09 55.93 95.7 0.997 8.2 7.6 53940
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 2.09 2.13 0.323
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 2.09 55.93 7102 302 81.023 0.218 0.2133 0.2176 0.2935 0.292 38.357
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] -0.509 -0.509 1.018
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.332 r_dihedral_angle_4_deg 23.459 r_dihedral_angle_3_deg 16.28 r_dihedral_angle_1_deg 7.87 r_lrange_it 7.69 r_lrange_other 7.681 r_scangle_it 6.095 r_scangle_other 6.078 r_mcangle_it 4.147 r_mcangle_other 4.147
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.332 r_dihedral_angle_4_deg 23.459 r_dihedral_angle_3_deg 16.28 r_dihedral_angle_1_deg 7.87 r_lrange_it 7.69 r_lrange_other 7.681 r_scangle_it 6.095 r_scangle_other 6.078 r_mcangle_it 4.147 r_mcangle_other 4.147 r_scbond_it 4.059 r_scbond_other 4.051 r_mcbond_it 3.065 r_mcbond_other 3.038 r_angle_refined_deg 1.569 r_angle_other_deg 1.325 r_xyhbond_nbd_refined 0.266 r_nbd_refined 0.228 r_symmetry_nbd_other 0.196 r_nbd_other 0.181 r_symmetry_nbd_refined 0.171 r_nbtor_refined 0.162 r_symmetry_xyhbond_nbd_refined 0.146 r_metal_ion_refined 0.131 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.077 r_symmetry_xyhbond_nbd_other 0.061 r_bond_refined_d 0.022 r_gen_planes_refined 0.007 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 28 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction autoPROC data scaling PHASER phasing