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X-RAY DIFFRACTION
Materials and Methods page
2QI8
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8
    Temperature 298.0
    Details 19% Ethylene glycol, pH 8, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 42 α = 78.78
    b = 63.02 β = 88.8
    c = 73.95 γ = 90.14
     
    Space Group
    Space Group Name:    P 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type MAR scanner 345 mm plate
    Details Osmic
    Collection Date 2006-11-11
     
    Diffraction Radiation
    Monochromator Multilayer Optic (Rigaku)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU MICROMAX-007
    Wavelength List 1.5417
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.32
    Resolution(Low) 72.55
    Number Reflections(All) 32189
    Number Reflections(Observed) 30194
    Percent Possible(Observed) 93.8
    R Merge I(Observed) 0.075
    B(Isotropic) From Wilson Plot 38.452
    Redundancy 2.2
     
    High Resolution Shell Details
    Resolution(High) 2.32
    Resolution(Low) 2.45
    Percent Possible(All) 91.6
    R Merge I(Observed) 0.37
    Mean I Over Sigma(Observed) 2.1
    R-Sym I(Observed) 0.37
    Redundancy 2.2
    Number Unique Reflections(All) 4326
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.32
    Resolution(Low) 72.548
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 32189
    Number of Reflections(Observed) 30188
    Number of Reflections(R-Free) 1546
    Percent Reflections(Observed) 93.79
    R-Factor(All) 0.209
    R-Factor(Observed) 0.209
    R-Work 0.205
    R-Free 0.28
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 33.707
    Anisotropic B[1][1] -0.31
    Anisotropic B[1][2] 0.02
    Anisotropic B[1][3] -0.4
    Anisotropic B[2][2] -0.48
    Anisotropic B[2][3] 0.76
    Anisotropic B[3][3] 0.51
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.32
    Shell Resolution(Low) 2.38
    Number of Reflections(Observed) 2177
    Number of Reflections(R-Free) 121
    Number of Reflections(R-Work) 2056
    R-Factor(R-Work) 0.247
    R-Factor(R-Free) 0.295
    Percent Reflections(Observed) 91.7
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 3.215
    r_scbond_it 2.139
    r_mcangle_it 1.524
    r_mcbond_it 0.89
    r_symmetry_hbond_refined 0.264
    r_bond_refined_d 0.016
    r_angle_refined_deg 1.782
    r_dihedral_angle_1_deg 7.797
    r_dihedral_angle_2_deg 36.352
    r_dihedral_angle_3_deg 19.045
    r_dihedral_angle_4_deg 16.392
    r_chiral_restr 0.117
    r_gen_planes_refined 0.006
    r_nbd_refined 0.222
    r_nbtor_refined 0.307
    r_xyhbond_nbd_refined 0.258
    r_symmetry_vdw_refined 0.238
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3991
    Nucleic Acid Atoms 0
    Heterogen Atoms 6
    Solvent Atoms 172
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MAR345dtb
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.2
     
    Software
    data extraction pdb_extract version: 2.000
    refinement REFMAC5
    data processing SCALA