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X-RAY DIFFRACTION
Materials and Methods page
4ICI
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7.5
    Temperature 293.0
    Details 1.40M tri-Sodium Citrate, 0.1M sodium HEPES pH 7.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 85.62 α = 90
    b = 85.62 β = 90
    c = 58.13 γ = 90
     
    Space Group
    Space Group Name:    I 41
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Details KOHZU: Double Crystal Si(111)
    Collection Date 2012-11-21
     
    Diffraction Radiation
    Monochromator Double Crystal Si(111)
    Diffraction Protocol MAD
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 8.2.2
    Wavelength List 0.918401,0.979493,0.979199
    Site ALS
    Beamline 8.2.2
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.4
    Resolution(Low) 29.07
    Number Reflections(All) 40475
    Number Reflections(Observed) 40475
    Percent Possible(Observed) 98.4
    B(Isotropic) From Wilson Plot 12.318
    Redundancy 3.9
     
    High Resolution Shell Details
    Resolution(High) 1.4
    Resolution(Low) 1.44
    Percent Possible(All) 99.5
    R Merge I(Observed) 0.689
    Mean I Over Sigma(Observed) 2.2
    R-Sym I(Observed) 0.689
    Redundancy 3.9
    Number Unique Reflections(All) 2976
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MAD
    reflnsShellList 1.4
    Resolution(Low) 29.067
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 40456
    Number of Reflections(R-Free) 2029
    Percent Reflections(Observed) 97.83
    R-Factor(Observed) 0.1163
    R-Work 0.1147
    R-Free 0.1468
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 17.776
    Anisotropic B[1][1] -0.28
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.28
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.56
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.4
    Shell Resolution(Low) 1.436
    Number of Reflections(R-Free) 143
    Number of Reflections(R-Work) 2821
    R-Factor(R-Work) 0.194
    R-Factor(R-Free) 0.262
    Percent Reflections(Observed) 99.16
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_sphericity_bonded 4.23
    r_sphericity_free 7.658
    r_rigid_bond_restr 1.906
    r_scangle_it 6.033
    r_scbond_it 4.605
    r_mcangle_it 3.441
    r_mcbond_other 1.603
    r_bond_refined_d 0.014
    r_bond_other_d 0.001
    r_angle_refined_deg 1.622
    r_angle_other_deg 1.027
    r_dihedral_angle_1_deg 5.995
    r_dihedral_angle_2_deg 33.49
    r_dihedral_angle_3_deg 10.655
    r_dihedral_angle_4_deg 8.613
    r_chiral_restr 0.083
    r_gen_planes_refined 0.008
    r_gen_planes_other 0.001
    r_mcbond_it 2.419
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1214
    Nucleic Acid Atoms 0
    Heterogen Atoms 64
    Solvent Atoms 255
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution SOLVE
    Structure Refinement REFMAC 5.5.0110
     
    Software
    refinement REFMAC5
    phasing SCALA version: 3.3.20
    phasing SOLVE
    data extraction pdb_extract version: 3.10
    validation MOLPROBITY version: 3beta29