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X-ray structure of the adduct formed upon reaction of Lysozyme with [Ru2Cl(D-p-FPhF)(O2CCH3)3] (Structure 3)
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 7 293 0.8 M succinic acid
Crystal Properties Matthews coefficient Solvent content 1.97 37.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.19 α = 90 b = 77.19 β = 90 c = 37.83 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 2022-06-17 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) R Merge I (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 1.07 38.603 96.8 0.042 1 33.8 19.3 949875
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.07 1.09 0.809 0.83 2.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 193L 1.07 38.603 48803 2421 95.876 0.187 0.1857 0.1956 0.2091 0.2169 15.021
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] -0.059 -0.059 0.117
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.714 r_dihedral_angle_4_deg 16.766 r_dihedral_angle_3_deg 15.227 r_lrange_it 7.999 r_lrange_other 7.63 r_dihedral_angle_1_deg 6.821 r_scangle_other 3.709 r_scangle_it 3.647 r_scbond_other 2.381 r_scbond_it 2.371
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.714 r_dihedral_angle_4_deg 16.766 r_dihedral_angle_3_deg 15.227 r_lrange_it 7.999 r_lrange_other 7.63 r_dihedral_angle_1_deg 6.821 r_scangle_other 3.709 r_scangle_it 3.647 r_scbond_other 2.381 r_scbond_it 2.371 r_angle_refined_deg 2.065 r_mcangle_other 2.064 r_mcangle_it 2.047 r_angle_other_deg 1.686 r_mcbond_it 1.364 r_mcbond_other 1.33 r_nbd_refined 0.274 r_nbd_other 0.248 r_xyhbond_nbd_refined 0.242 r_symmetry_nbd_refined 0.239 r_symmetry_nbd_other 0.224 r_symmetry_xyhbond_nbd_refined 0.219 r_nbtor_refined 0.184 r_chiral_restr 0.121 r_symmetry_nbtor_other 0.091 r_symmetry_xyhbond_nbd_other 0.08 r_bond_refined_d 0.016 r_gen_planes_refined 0.012 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 992 Nucleic Acid Atoms Solvent Atoms 187 Heterogen Atoms 35
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction autoPROC data scaling PHASER phasing