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Carboplatin binding to HEWL in 20% propanol, 20% PEG 4000 at pH5.6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2W1Y PDB ENTRY 2W1Y
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 298 20mg of HEWL (0.6mM) was dissolved in 1ml distilled water. 1.4mg of carboplatin (1.8mM) was added along with 75 l DMSO. 2 l of this was mixed with 2 l of resevoir solution 20% PEG 4000 at pH5.6, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.94 36.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.713 α = 90 b = 77.713 β = 90 c = 36.84 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 APEX II CCD 2013-07-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR-H 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 2.3 33.31 53.6 0.295 7.5 7.8 9485 5086 4 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.65 100 0.505 1.5 7.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 PDB ENTRY 2W1Y 2.3 33.31 2 4 9485 5086 270 99.93 0.224 0.22352 0.22025 0.231 0.28489 0.2843 RANDOM 29.538
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] -0.48 -0.48 0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.089 r_dihedral_angle_4_deg 15.927 r_dihedral_angle_3_deg 14.072 r_dihedral_angle_1_deg 6.73 r_long_range_B_refined 5.116 r_long_range_B_other 5.113 r_scangle_other 3.168 r_mcangle_other 2.715 r_mcangle_it 2.711 r_mcbond_it 1.653
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.089 r_dihedral_angle_4_deg 15.927 r_dihedral_angle_3_deg 14.072 r_dihedral_angle_1_deg 6.73 r_long_range_B_refined 5.116 r_long_range_B_other 5.113 r_scangle_other 3.168 r_mcangle_other 2.715 r_mcangle_it 2.711 r_mcbond_it 1.653 r_scbond_it 1.65 r_scbond_other 1.639 r_mcbond_other 1.637 r_angle_refined_deg 1.373 r_angle_other_deg 0.846 r_chiral_restr 0.076 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001 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 37 Heterogen Atoms 31
Software Software Software Name Purpose APEX data collection PHASER phasing REFMAC refinement SAINT data reduction APEX data reduction