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X-RAY DIFFRACTION
Materials and Methods page
3TXK
  •   Crystallization Hide
    Crystallization Experiments
    Method BATCH
    pH 6.5
    Temperature 277.0
    Details 20 mg HEWL + 1.1 mg cisplatin in 462.5 uL 0.04 M sodium acetate + 75 uL DMSO + 462.5 uL 10% sodium chloride, with paratone as cryoprotectant, pH 6.5, BATCH, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 79.46 α = 90
    b = 79.46 β = 90
    c = 36.96 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 CCD
    Type RIGAKU RAXIS IV
    Details Osmic Confocal Max-Flux, blue configuration
    Collection Date 2011-05-09
     
    Diffraction Radiation
    Monochromator NONE
    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) 3
    Resolution(Low) 56.19
    Number Reflections(All) 4150
    Number Reflections(Observed) 2365
    Percent Possible(Observed) 56.9
    R Merge I(Observed) 0.15
    B(Isotropic) From Wilson Plot 27.9
    Redundancy 3.18
     
    High Resolution Shell Details
    Resolution(High) 3.0
    Resolution(Low) 3.11
    Percent Possible(All) 91.3
    R Merge I(Observed) 0.226
    Mean I Over Sigma(Observed) 3.2
    Redundancy 3.15
    Number Unique Reflections(All) 4150
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.0
    Resolution(Low) 33.51
    Cut-off Sigma(I) 2.0
    Cut-off Sigma(F) 4.0
    Number of Reflections(all) 4150
    Number of Reflections(Observed) 2365
    Number of Reflections(R-Free) 109
    Percent Reflections(Observed) 94.54
    R-Factor(Observed) 0.2136
    R-Work 0.21141
    R-Free 0.25852
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 42.113
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.0
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.01
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0
    Shell Resolution(Low) 3.077
    Number of Reflections(R-Free) 11
    Number of Reflections(R-Work) 174
    R-Factor(R-Work) 0.321
    R-Factor(R-Free) 0.224
    Percent Reflections(Observed) 96.35
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 2.181
    r_scbond_it 1.301
    r_mcangle_it 0.795
    r_mcbond_it 0.405
    r_gen_planes_refined 0.005
    r_chiral_restr 0.103
    r_dihedral_angle_4_deg 21.234
    r_dihedral_angle_3_deg 20.305
    r_dihedral_angle_2_deg 41.853
    r_dihedral_angle_1_deg 7.208
    r_angle_refined_deg 1.691
    r_bond_refined_d 0.015
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1001
    Nucleic Acid Atoms 0
    Heterogen Atoms 30
    Solvent Atoms 7
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CrystalClear
    Data Reduction (intensity integration) d*TREK
    Data Reduction (data scaling) d*TREK
    Structure Solution PHASER MOLECULAR REPLACEMENT
    Structure Refinement REFMAC 5.5.0110
     
    Software
    refinement REFMAC version: 5.5.0110
    model building PHASER version: MOLECULAR REPLACEMENT
    data collection CrystalClear