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X-RAY DIFFRACTION
Materials and Methods page
3VN0
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8
    Temperature 283.0
    Details 0.1M KCL, 0.05M TRIS-HCL PH8.0, 0.1M SODIUM MALONATE, 30% PEG 1000, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 283K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 40.13 α = 90
    b = 53.87 β = 90
    c = 81.41 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 90
     
    Diffraction Detector
    Detector CCD
    Type RAYONIX MX225HE
    Collection Date 2010-05-23
     
    Diffraction Radiation
    Monochromator SI 111
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SPRING-8 BEAMLINE BL44XU
    Wavelength 0.9000
    Site SPRING-8
    Beamline BL44XU
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.37
    Resolution(Low) 50
    Number Reflections(Observed) 37843
    Percent Possible(Observed) 100.0
    R Merge I(Observed) 0.042
    Redundancy 8.3
     
    High Resolution Shell Details
    Resolution(High) 1.37
    Resolution(Low) 1.39
    Percent Possible(All) 99.9
    R Merge I(Observed) 0.484
    Mean I Over Sigma(Observed) 4.107
    R-Sym I(Observed) 0.484
    Redundancy 7.1
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.37
    Resolution(Low) 40.71
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 37776
    Number of Reflections(R-Free) 1931
    Percent Reflections(Observed) 99.8
    R-Factor(Observed) 0.183
    R-Work 0.181
    R-Free 0.218
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 20.63
    Anisotropic B[1][1] -0.02
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.3
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.32
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.37
    Shell Resolution(Low) 1.41
    Number of Reflections(R-Free) 149
    Number of Reflections(R-Work) 2533
    R-Factor(R-Work) 0.21
    R-Factor(R-Free) 0.22
    Percent Reflections(Observed) 97.39
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 6.127
    r_scbond_it 3.852
    r_mcangle_it 2.484
    r_mcbond_it 1.408
    r_gen_planes_refined 0.011
    r_chiral_restr 0.168
    r_dihedral_angle_4_deg 18.481
    r_dihedral_angle_3_deg 14.467
    r_dihedral_angle_2_deg 43.973
    r_dihedral_angle_1_deg 3.964
    r_angle_refined_deg 2.445
    r_bond_refined_d 0.026
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1576
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 240
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL
    Data Reduction (data scaling) HKL
    Structure Solution REFMAC 5.5.0102
    Structure Refinement REFMAC 5.5.0102
     
    Software
    refinement REFMAC version: 5.5.0102
    model building REFMAC version: 5.5.0102