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X-RAY DIFFRACTION
Materials and Methods page
3W05
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 293.0
    Details 8% PEG6000, 5% MPD, 0.1M Na-HEPES, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 48.3 α = 90
    b = 88.52 β = 90
    c = 118.88 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 RAYONIX MX225HE
    Details mirrors
     
    Diffraction Radiation
    Monochromator Rotated-inclined double-crystal monochromator , Si (111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SPRING-8 BEAMLINE BL41XU
    Wavelength List 1.00
    Site SPRING-8
    Beamline BL41XU
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.58
    Resolution(Low) 50
    Number Reflections(All) 70618
    Number Reflections(Observed) 69842
    Percent Possible(Observed) 98.9
    Redundancy 6.8
     
    High Resolution Shell Details
    Resolution(High) 1.58
    Resolution(Low) 1.64
    Percent Possible(All) 93.5
    R-Sym I(Observed) 0.493
    Redundancy 3.0
    Number Unique Reflections(All) 6484
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLREP
    reflnsShellList 1.58
    Resolution(Low) 50.0
    Number of Reflections(all) 70614
    Number of Reflections(Observed) 66026
    Number of Reflections(R-Free) 3501
    Percent Reflections(Observed) 98.46
    R-Factor(Observed) 0.16763
    R-Work 0.16622
    R-Free 0.19434
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 14.551
    Anisotropic B[1][1] 0.61
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.39
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.22
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.58
    Shell Resolution(Low) 1.621
    Number of Reflections(Observed) 4698
    Number of Reflections(R-Free) 253
    Number of Reflections(R-Work) 4445
    R-Factor(R-Work) 0.232
    R-Factor(R-Free) 0.271
    Percent Reflections(Observed) 91.51
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 6.452
    r_scbond_it 4.334
    r_mcangle_it 2.787
    r_mcbond_it 1.789
    r_gen_planes_refined 0.009
    r_chiral_restr 0.111
    r_dihedral_angle_4_deg 19.777
    r_dihedral_angle_3_deg 14.126
    r_dihedral_angle_2_deg 26.255
    r_dihedral_angle_1_deg 5.818
    r_angle_refined_deg 1.481
    r_bond_refined_d 0.011
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4086
    Nucleic Acid Atoms 0
    Heterogen Atoms 48
    Solvent Atoms 431
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building MOLREP
    data collection HKL-2000