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X-RAY DIFFRACTION
Materials and Methods page
4DDB
  •   Crystallization Hide
    Crystallization Experiments
    Method BATCH
    pH 6.5
    Temperature 277.0
    Details HEWL co-crystallized with cisplatin in 462.5 uL 0.05 M sodium acetate, pH 6.5, 462.5 uL 10% sodium chloride, and 75 uL DMSO, BATCH, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 79.64 α = 90
    b = 79.64 β = 90
    c = 37.02 γ = 90
     
    Space Group
    Space Group Name:    P 43 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type RIGAKU RAXIS IV
    Details Osmic Confocal Max-Flux, blue configuration
    Collection Date 2011-05-09
     
    Diffraction Radiation
    Monochromator confocal mirror optics
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU MICROMAX-007
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 4.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.5
    Resolution(Low) 30.94
    Number Reflections(All) 3234
    Number Reflections(Observed) 1772
    Percent Possible(Observed) 54.7
    R Merge I(Observed) 0.136
    Redundancy 24.6
     
    High Resolution Shell Details
    Resolution(High) 2.5
    Resolution(Low) 2.58
    Percent Possible(All) 97.3
    R Merge I(Observed) 0.528
    Mean I Over Sigma(Observed) 6.1
    Redundancy 24.5
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.0
    Resolution(Low) 28.16
    Cut-off Sigma(I) 2.0
    Cut-off Sigma(F) 4.0
    Number of Reflections(all) 3234
    Number of Reflections(Observed) 1772
    Number of Reflections(R-Free) 73
    Percent Reflections(Observed) 70.1
    R-Factor(Observed) 0.21684
    R-Work 0.21399
    R-Free 0.2795
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 17.811
    Anisotropic B[1][1] 0.22
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.22
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.43
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0
    Shell Resolution(Low) 3.077
    Number of Reflections(R-Free) 4
    Number of Reflections(R-Work) 145
    R-Factor(R-Work) 0.24
    R-Factor(R-Free) 0.373
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.002
    r_gen_planes_refined 0.003
    r_chiral_restr 0.064
    r_dihedral_angle_4_deg 14.599
    r_dihedral_angle_3_deg 16.27
    r_dihedral_angle_2_deg 37.751
    r_dihedral_angle_1_deg 6.001
    r_angle_other_deg 2.223
    r_angle_refined_deg 1.173
    r_bond_other_d 0.002
    r_bond_refined_d 0.008
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1001
    Nucleic Acid Atoms 0
    Heterogen Atoms 48
    Solvent Atoms 31
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CrystalClear
    Data Reduction (intensity integration) EVAL 15
    Data Reduction (data scaling) EVAL 15
    Structure Solution Phaser MR
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building Phaser version: MR
    data collection CrystalClear