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X-RAY DIFFRACTION
Materials and Methods page
4J2I
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 286.0
    Details Ni, Spermine, Sodium cacodilate, 36% MPD, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 286K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 72.4 α = 90
    b = 27.94 β = 103.1
    c = 159.71 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 210r
    Details Mirrors
    Collection Date 2005-11-19
     
    Diffraction Radiation
    Monochromator Mirrors
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE BM16
    Wavelength List 0.91986
    Site ESRF
    Beamline BM16
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.98
    Resolution(Low) 26.5
    Number Reflections(All) 7242
    Number Reflections(Observed) 6641
    Percent Possible(Observed) 99.2
    R Merge I(Observed) 0.138
    Redundancy 3.6
     
    High Resolution Shell Details
    Resolution(High) 2.98
    Resolution(Low) 3.14
    Percent Possible(All) 98.7
    R Merge I(Observed) 0.216
    Mean I Over Sigma(Observed) 2.4
    Redundancy 3.6
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.98
    Resolution(Low) 26.5
    Number of Reflections(Observed) 6348
    Number of Reflections(R-Free) 292
    Percent Reflections(Observed) 99.02
    R-Factor(Observed) 0.27031
    R-Work 0.26963
    R-Free 0.28729
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 52.175
    Anisotropic B[1][1] -57.27
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -0.41
    Anisotropic B[2][2] -30.35
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 87.62
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.982
    Shell Resolution(Low) 3.06
    Number of Reflections(R-Free) 27
    Number of Reflections(R-Work) 439
    R-Factor(R-Work) 0.419
    R-Factor(R-Free) 0.42
    Percent Reflections(Observed) 96.48
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.012
    r_gen_planes_refined 0.009
    r_chiral_restr 0.306
    r_dihedral_angle_1_deg 15.23
    r_angle_other_deg 4.638
    r_angle_refined_deg 1.075
    r_bond_other_d 0.014
    r_bond_refined_d 0.019
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 0
    Nucleic Acid Atoms 1944
    Heterogen Atoms 0
    Solvent Atoms 17
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) SCALA
    Structure Solution AMoRE
    Structure Refinement REFMAC 5.8.0041
     
    Software
    refinement REFMAC version: 5.8.0024
    model building AMoRE
    data collection ADSC version: Quantum