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X-RAY DIFFRACTION
Materials and Methods page
3QQL
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 291.0
    Details 5 mg/mL CDK2 protein, 3 mM inhibitor, 15% v/v PEG3350, 50 mM HEPES/NaOH, 50 mM Na/K phosphate, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 53.3 α = 90
    b = 71.17 β = 90
    c = 72.23 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 93
     
    Diffraction Detector
    Detector CCD
    Type RIGAKU SATURN 944+
    Details MIRRORS
    Collection Date 2007-02-23
     
    Diffraction Radiation
    Monochromator MIRRORS
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU MICROMAX-007 HF
    Wavelength 1.54178
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.85
    Resolution(Low) 20
    Number Reflections(All) 23983
    Number Reflections(Observed) 23983
    Percent Possible(Observed) 99.4
    R Merge I(Observed) 0.081
    B(Isotropic) From Wilson Plot 18.7
    Redundancy 3.2
     
    High Resolution Shell Details
    Resolution(High) 1.85
    Resolution(Low) 1.92
    Percent Possible(All) 99.7
    R Merge I(Observed) 0.261
    Mean I Over Sigma(Observed) 5.55
    Redundancy 3.1
    Number Unique Reflections(All) 2357
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.85
    Resolution(Low) 14.63
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 23497
    Number of Reflections(Observed) 23497
    Number of Reflections(R-Free) 1136
    Percent Reflections(Observed) 97.6
    R-Factor(All) 0.184
    R-Factor(Observed) 0.184
    R-Work 0.184
    R-Free 0.224
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 25.9
    Anisotropic B[1][1] 1.06
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 1.03
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.08
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.85
    Shell Resolution(Low) 1.97
    Number of Reflections(Observed) 3541
    Number of Reflections(R-Free) 189
    Number of Reflections(R-Work) 3541
    R-Factor(R-Work) 0.226
    R-Factor(R-Free) 0.296
    R-Free Error 0.021
    Percent Reflections(Observed) 94.6
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 2.82
    c_scbond_it 1.9
    c_mcangle_it 2.1
    c_mcbond_it 1.33
    c_improper_angle_d 0.92
    c_bond_d 0.01
    c_angle_deg 1.4
    c_dihedral_angle_d 22.4
     
    Coordinate Error
    Luzzati ESD(Observed) 0.19
    Luzzati Sigma A(Observed) 0.1
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.24
    Luzzati Sigma A(R-Free Set) 0.16
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2366
    Nucleic Acid Atoms 0
    Heterogen Atoms 18
    Solvent Atoms 242
     
     
  •   Software and Computing Hide
    Computing
    Data Collection StructureStudio
    Data Reduction (intensity integration) HKL2000
    Data Reduction (data scaling) HKL2000
    Structure Solution CNS 1.2
    Structure Refinement CNS 1.2
     
    Software
    refinement CNS version: 1.2
    model building CNS version: 1.2
    data collection StructureStudio