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X-RAY DIFFRACTION
Materials and Methods page
3SD6
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7.5
    Temperature 298.0
    Details cadmium sulphate 0.05M, sodium acetate 1.0M, 0.1M Hepes, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298.0K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 49.58 α = 90
    b = 49.58 β = 90
    c = 116.04 γ = 120
     
    Space Group
    Space Group Name:    P 61 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Collection Date 2010-07-28
     
    Diffraction Radiation
    Monochromator double crystal monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type CLSI BEAMLINE 08ID-1
    Wavelength List 0.97949
    Site CLSI
    Beamline 08ID-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.37
    Resolution(Low) 50
    Number Reflections(All) 18054
    Number Reflections(Observed) 17494
    Percent Possible(Observed) 97.0
    R Merge I(Observed) 0.05
    Redundancy 10.5
     
    High Resolution Shell Details
    Resolution(High) 1.37
    Resolution(Low) 1.42
    Percent Possible(All) 79.8
    R Merge I(Observed) 0.429
    Mean I Over Sigma(Observed) 2.3
    Redundancy 4.3
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.37
    Resolution(Low) 42.93
    Number of Reflections(Observed) 17008
    Number of Reflections(R-Free) 924
    Percent Reflections(Observed) 96.7
    R-Factor(Observed) 0.134
    R-Work 0.133
    R-Free 0.148
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 25.78
    Anisotropic B[1][1] 1.1
    Anisotropic B[1][2] 0.55
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 1.1
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -1.65
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.37
    Shell Resolution(Low) 1.41
    Number of Reflections(R-Free) 56
    Number of Reflections(R-Work) 966
    R-Factor(R-Work) 0.257
    R-Factor(R-Free) 0.255
    Percent Reflections(Observed) 76.33
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_rigid_bond_restr 4.134
    r_scangle_it 9.236
    r_scbond_it 6.916
    r_mcangle_it 5.169
    r_mcbond_it 3.781
    r_gen_planes_refined 0.015
    r_chiral_restr 0.118
    r_dihedral_angle_4_deg 25.8
    r_dihedral_angle_3_deg 15.722
    r_dihedral_angle_2_deg 43.9
    r_dihedral_angle_1_deg 6.025
    r_angle_refined_deg 1.541
    r_bond_refined_d 0.012
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 667
    Nucleic Acid Atoms 0
    Heterogen Atoms 17
    Solvent Atoms 49
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MXDC
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHASER-MR 2.1.4
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building PHASER-MR version: 2.1.4
    data collection MXDC