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X-RAY DIFFRACTION
Materials and Methods page
4GNE
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 283.0
    Details 0.1M Tris-HCl pH 7.0, 30% (w/v) PEG 3000, 0.2M NaCl, VAPOR DIFFUSION, HANGING DROP, temperature 283K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 57.2 α = 90
    b = 57.2 β = 90
    c = 107.44 γ = 120
     
    Space Group
    Space Group Name:    P 65 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2011-07-09
     
    Diffraction Radiation
    Monochromator Si 111 CHANNEL
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRF BEAMLINE BL17U
    Wavelength List 0.97915
    Site SSRF
    Beamline BL17U
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 1.47
    Resolution(Low) 49.54
    Number Reflections(All) 18583
    Number Reflections(Observed) 18490
    Percent Possible(Observed) 99.5
    Redundancy 39.7
     
    High Resolution Shell Details
    Resolution(High) 1.47
    Resolution(Low) 1.54
    Percent Possible(All) 98.5
    R Merge I(Observed) 0.281
    Mean I Over Sigma(Observed) 2.6
    R-Sym I(Observed) 0.281
    Redundancy 37.4
    Number Unique Reflections(All) 2593
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 1.47
    Resolution(Low) 36.42
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 18583
    Number of Reflections(Observed) 18455
    Number of Reflections(R-Free) 948
    Percent Reflections(Observed) 99.3
    R-Factor(Observed) 0.1495
    R-Work 0.148
    R-Free 0.1785
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 19.2855
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.0
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.0
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.465
    Shell Resolution(Low) 1.503
    Number of Reflections(R-Free) 65
    Number of Reflections(R-Work) 1239
    R-Factor(R-Work) 0.161
    R-Factor(R-Free) 0.205
    Percent Reflections(Observed) 97.02
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_sphericity_bonded 11.569
    r_rigid_bond_restr 1.77
    r_gen_planes_refined 0.008
    r_chiral_restr 0.088
    r_dihedral_angle_4_deg 25.026
    r_dihedral_angle_3_deg 10.587
    r_dihedral_angle_2_deg 38.067
    r_dihedral_angle_1_deg 6.414
    r_angle_refined_deg 1.297
    r_bond_refined_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 810
    Nucleic Acid Atoms 0
    Heterogen Atoms 4
    Solvent Atoms 136
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution SHELXD
    Structure Refinement REFMAC 5.7.0029
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    phasing SHELX
    data reduction SCALA version: 3.3.20
    data collection Mosflm