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X-RAY DIFFRACTION
Materials and Methods page
1SDW
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.5
    Temperature 293.0
    Details 0.8mM Nickle chloride, 100mM sodium cacodylate, 3mM sodium azide, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 69.48 α = 90
    b = 68.98 β = 90
    c = 82.11 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
     
    Diffraction Radiation
    Monochromator double Si crystal
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X4A
    Wavelength List 0.9763
    Site NSLS
    Beamline X4A
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.85
    Resolution(Low) 19.69
    Number Reflections(Observed) 34131
    Percent Possible(Observed) 97.6
    B(Isotropic) From Wilson Plot 21.9
    Redundancy 5.42
     
    High Resolution Shell Details
    Resolution(High) 1.85
    Resolution(Low) 1.98
    Percent Possible(All) 89.4
    R Merge I(Observed) 0.36
    Mean I Over Sigma(Observed) 2.1
    R-Sym I(Observed) 0.36
    Redundancy 2.9
    Number Unique Reflections(All) 6163
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.85
    Resolution(Low) 19.69
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 31900
    Number of Reflections(Observed) 31900
    Number of Reflections(R-Free) 1599
    Percent Reflections(Observed) 92.8
    R-Factor(Observed) 0.197
    R-Work 0.197
    R-Free 0.226
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 44.6
    Anisotropic B[1][1] 5.76
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -5.54
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.21
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.85
    Shell Resolution(Low) 1.97
    Number of Reflections(Observed) 4151
    Number of Reflections(R-Free) 213
    R-Factor(R-Work) 0.32
    R-Factor(R-Free) 0.374
    R-Free Error 0.026
    Percent Reflections(Observed) 77.4
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_mcbond_it 2.26
    c_improper_angle_d 0.91
    c_dihedral_angle_d 26.7
    c_angle_deg 1.6
    c_bond_d 0.013
     
    Coordinate Error
    Luzzati ESD(Observed) 0.22
    Luzzati Sigma A(Observed) 0.21
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.26
    Luzzati Sigma A(R-Free Set) 0.26
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2433
    Nucleic Acid Atoms 0
    Heterogen Atoms 116
    Solvent Atoms 180
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution CNS
    Structure Refinement CNS
     
    Software
    refinement CNS
    model building CNS
    data reduction SCALEPACK
    data collection DENZO