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X-RAY DIFFRACTION
Materials and Methods page
4HKA
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 293.0
    Details 0.1 M HEPES, and 1.1 M sodium malonate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 114.72 α = 90
    b = 114.72 β = 90
    c = 213.44 γ = 120
     
    Space Group
    Space Group Name:    P 64 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type RAYONIX MX225HE
    Collection Date 2012-02-26
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRF BEAMLINE BL17U
    Wavelength List 0.97913
    Site SSRF
    Beamline BL17U
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.7
    Resolution(Low) 50
    Number Reflections(Observed) 23131
    Percent Possible(Observed) 97.9
    R Merge I(Observed) 0.066
    Redundancy 8.1
     
    High Resolution Shell Details
    Resolution(High) 2.7
    Resolution(Low) 2.8
    Percent Possible(All) 99.4
    R Merge I(Observed) 0.565
    Mean I Over Sigma(Observed) 4.7
    Redundancy 8.4
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.7
    Resolution(Low) 50.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 23000
    Number of Reflections(R-Free) 1154
    Percent Reflections(Observed) 97.55
    R-Factor(Observed) 0.2276
    R-Work 0.2258
    R-Free 0.264
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 72.5897
    Anisotropic B[1][1] 3.05
    Anisotropic B[1][2] 1.53
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 3.05
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -4.58
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7
    Shell Resolution(Low) 2.77
    Number of Reflections(R-Free) 89
    Number of Reflections(R-Work) 1409
    R-Factor(R-Work) 0.299
    R-Factor(R-Free) 0.38
    Percent Reflections(Observed) 98.49
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.003
    r_chiral_restr 0.066
    r_dihedral_angle_4_deg 12.435
    r_dihedral_angle_3_deg 15.911
    r_dihedral_angle_2_deg 33.138
    r_dihedral_angle_1_deg 4.007
    r_angle_refined_deg 0.905
    r_bond_refined_d 0.005
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2873
    Nucleic Acid Atoms 0
    Heterogen Atoms 43
    Solvent Atoms 24
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution Phaser
    Structure Refinement REFMAC 5.6.0117
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5 version: 5.6.0117