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X-ray structure of the adduct of bis(maltolato)oxidovanadium(IV) with lysozyme upon the breakage of the maltolate ring
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 4 293 1.1 M sodium chloride, 0.1 M sodium acetate pH 4.0
Crystal Properties Matthews coefficient Solvent content 2 38.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.11 α = 90 b = 78.11 β = 90 c = 37.21 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 DECTRIS PILATUS 6M 2021-07-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 1.0 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 1.09 55.232 99.9 0.999 29 22.9 48619
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 1.09 1.11 0.822
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 1.09 55.232 47681 2489 98.255 0.13 0.1292 0.1465 0.1516 0.1681 19.108
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] 0.193 0.193 -0.387
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.265 r_dihedral_angle_4_deg 20.739 r_rigid_bond_restr 15.291 r_dihedral_angle_3_deg 12.208 r_dihedral_angle_1_deg 6.758 r_mcangle_other 5.069 r_scangle_it 5.029 r_scangle_other 5.021 r_lrange_it 5.014 r_mcangle_it 5.007
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.265 r_dihedral_angle_4_deg 20.739 r_rigid_bond_restr 15.291 r_dihedral_angle_3_deg 12.208 r_dihedral_angle_1_deg 6.758 r_mcangle_other 5.069 r_scangle_it 5.029 r_scangle_other 5.021 r_lrange_it 5.014 r_mcangle_it 5.007 r_mcbond_it 4.857 r_lrange_other 4.8 r_scbond_other 4.346 r_scbond_it 4.27 r_mcbond_other 4.161 r_angle_refined_deg 2.645 r_angle_other_deg 1.795 r_symmetry_xyhbond_nbd_refined 0.376 r_xyhbond_nbd_refined 0.311 r_nbd_refined 0.28 r_symmetry_nbd_refined 0.279 r_nbd_other 0.24 r_symmetry_nbd_other 0.203 r_nbtor_refined 0.183 r_chiral_restr 0.154 r_metal_ion_refined 0.136 r_symmetry_nbtor_other 0.093 r_bond_refined_d 0.021 r_symmetry_xyhbond_nbd_other 0.017 r_gen_planes_refined 0.015 r_bond_other_d 0.007 r_gen_planes_other 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1024 Nucleic Acid Atoms Solvent Atoms 176 Heterogen Atoms 18
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction autoPROC data scaling PHASER phasing