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X-RAY DIFFRACTION
Materials and Methods page
1KI4
  •   Crystallization Hide
    Crystallization Experiments
    Method vapor diffusion - hanging drop
    pH 7.5
    Details HANGING-DROP: 8ML PROTEIN SOLUTION PLUS 4ML PRECIPITATING SOLUTION EQUILIBRATED AGAINST PRECIPITATING SOLUTION AT 25 C. PROTEIN SOLUTION: HSV-TK 1.0MG/ML; 40MM TRIS-CL PH 7.5; 3MM DTT; 0.2MM DT. PRECIPITATING SOLUTION: 30% SATURATED AMMONIUM SULPHATE; 200MM TRIS-CL PH 6.75; 3MM DTT; 0.2 MM DT. EXCHANGE OF DEOXYTHYMIDINE BOUND TO THE PROTEIN FOR 5-BROMOTHIENYLDEOXYURIDINE WAS MADE BY WASHING THE CRYSTALS FIVE TIMES IN A 3 ML SOLUTION (33% SATURATED AMMONIUM SULPHATE; 100MM TRIS-CL PH 6.75) CONTAINING 5-BROMOTHIENYLDEOXYURIDINE (BTDU)., vapor diffusion - hanging drop
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 114.1 α = 90
    b = 116 β = 90
    c = 108.7 γ = 90
     
    Space Group
    Space Group Name:    C 2 2 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 120
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type RIGAKU RAXIS IIC
    Details MIRRORS
    Collection Date 1996-08
     
    Diffraction Radiation
    Monochromator OTWINOWSKI MIRRORS
     
    Diffraction Source
    Wavelength 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.34
    Number Reflections(Observed) 29537
    Percent Possible(Observed) 100.0
    B(Isotropic) From Wilson Plot 24.07
    Redundancy 4.0
     
    High Resolution Shell Details
    Resolution(High) 2.34
    Resolution(Low) 2.52
    Percent Possible(All) 100.0
    Mean I Over Sigma(Observed) 4.5
    Redundancy 4.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MIR + NCS IMPROVEMENT AND SOLVENT FLATTENING FOR ORIGINAL NATIVE, 1KIN
    reflnsShellList 2.34
    Resolution(Low) 12.0
    Cut-off Sigma(F) 1.2
    Number of Reflections(Observed) 25327
    Number of Reflections(R-Free) 2515
    Percent Reflections(Observed) 83.0
    R-Factor(Observed) 0.21
    R-Work 0.21
    R-Free 0.309
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model INDIVIDUAL B-FACTOR REFT.
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.34
    Shell Resolution(Low) 2.42
    Number of Reflections(R-Free) 214
    Number of Reflections(R-Work) 1742
    R-Factor(R-Work) 0.275
    R-Factor(R-Free) 0.344
    Percent Reflections(Observed) 65.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    x_scangle_it 2.0
    x_scbond_it 1.5
    x_mcangle_it 2.0
    x_mcbond_it 1.5
    x_improper_angle_d 1.616
    x_bond_d 0.013
    x_angle_deg 2.016
    x_dihedral_angle_d 22.77
     
    Coordinate Error
    Luzzati ESD(Observed) 0.3
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4625
    Nucleic Acid Atoms 0
    Heterogen Atoms 54
    Solvent Atoms 263
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution RAVE, SOLOMON
    Structure Refinement X-PLOR 3.1
     
    Software
    refinement X-PLOR version: 3.1
    model building SOLOMON
    model building RAVE