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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4I0K
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION
    pH 7.5
    Temperature 291.0
    Details 0.1 M HEPES, pH 7.5; 20% PEG-10000, VAPOR DIFFUSION, temperature 291K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 100.92 α = 90
    b = 100.92 β = 90
    c = 188.18 γ = 120
     
    Space Group
    Space Group Name:    P 61 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Collection Date 2009-11-19
     
    Diffraction Radiation
    Monochromator Si crystal
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X29A
    Wavelength List 0.9789
    Site NSLS
    Beamline X29A
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.83
    Resolution(Low) 87.4
    Number Reflections(Observed) 12250
    Percent Possible(Observed) 99.7
    Redundancy 13.1
     
    High Resolution Shell Details
    Resolution(High) 2.97
    Resolution(Low) 3.13
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.8
    Mean I Over Sigma(Observed) 1.0
    R-Sym I(Observed) 0.8
    Redundancy 13.7
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.97
    Resolution(Low) 30.0
    Number of Reflections(Observed) 11661
    Number of Reflections(R-Free) 589
    Percent Reflections(Observed) 99.5
    R-Factor(Observed) 0.21712
    R-Work 0.21548
    R-Free 0.24974
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 72.265
    Anisotropic B[1][1] -0.02
    Anisotropic B[1][2] -0.02
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.02
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.08
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.97
    Shell Resolution(Low) 3.046
    Number of Reflections(R-Free) 46
    Number of Reflections(R-Work) 817
    R-Factor(R-Work) 0.289
    R-Factor(R-Free) 0.402
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.006
    r_chiral_restr 0.084
    r_dihedral_angle_4_deg 19.567
    r_dihedral_angle_3_deg 21.034
    r_dihedral_angle_2_deg 33.736
    r_dihedral_angle_1_deg 8.35
    r_angle_other_deg 0.841
    r_angle_refined_deg 1.742
    r_bond_other_d 0.002
    r_bond_refined_d 0.012
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1513
    Nucleic Acid Atoms 0
    Heterogen Atoms 74
    Solvent Atoms 5
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CBASS
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution BALBES
    Structure Refinement REFMAC 5.7.0029
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    data reduction SCALA version: 3.3.20