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X-RAY STRUCTURE OF THE ADDUCT BETWEEN HEN EGG WHITE LYSOZYME AND CISPLATIN UPON 24 HOURS OF INCUBATION AT 55 DEGREES
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 293 Crystals were grown using a reservoir solution of 1.1 M NaCl, 0.1 M sodium acetate pH 4.4 and a drop of 1 uL adduct solution and 1 uL reservoir solution.
Crystal Properties Matthews coefficient Solvent content 1.96 37.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.99 α = 90 b = 77.99 β = 90 c = 36.93 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 CCD RIGAKU SATURN 944 2015-10-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.94 55.2 98.2 0.224 13.5 4.3 8655
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 1.94 1.99 95.6 0.786 0.259 0.9 3.3
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 193L 1.94 55.15 8257 403 97.33 0.20164 0.19925 0.205 0.24818 0.2552 RANDOM 22.625
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] -0.24 -0.24 0.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.837 r_dihedral_angle_4_deg 19.631 r_dihedral_angle_3_deg 14.775 r_dihedral_angle_1_deg 6.761 r_long_range_B_refined 6.291 r_long_range_B_other 5.998 r_scangle_other 3.908 r_scbond_it 2.534 r_scbond_other 2.496 r_mcangle_other 2.262
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.837 r_dihedral_angle_4_deg 19.631 r_dihedral_angle_3_deg 14.775 r_dihedral_angle_1_deg 6.761 r_long_range_B_refined 6.291 r_long_range_B_other 5.998 r_scangle_other 3.908 r_scbond_it 2.534 r_scbond_other 2.496 r_mcangle_other 2.262 r_mcangle_it 2.261 r_angle_refined_deg 1.672 r_mcbond_it 1.471 r_mcbond_other 1.467 r_angle_other_deg 1.06 r_chiral_restr 0.093 r_bond_refined_d 0.014 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1001 Nucleic Acid Atoms Solvent Atoms 117 Heterogen Atoms 11
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling REFMAC phasing