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X-RAY DIFFRACTION
Materials and Methods page
4JYA
  •   Crystallization Hide
    Crystallization Experiments
    Method EVAPORATION
    pH 6.5
    Temperature 277.15
    Details 12% MPD, 0.1M MES-KOH, 0.075M magnesium chloride, 0.1M KCL, pH 6.5, EVAPORATION, temperature 277.15K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 402.32 α = 90
    b = 402.32 β = 90
    c = 174.93 γ = 90
     
    Space Group
    Space Group Name:    P 41 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 277
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315r
    Collection Date 2012-08-02
     
    Diffraction Radiation
    Monochromator MIRRORS
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type DIAMOND BEAMLINE I04
    Wavelength List 1.000
    Site DIAMOND
    Beamline I04
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.0
    Observed Criterion Sigma(I) 1.0
    Resolution(High) 3.1
    Resolution(Low) 48.93
    Number Reflections(All) 242068
    Number Reflections(Observed) 254809
    Percent Possible(Observed) 98.95
     
    High Resolution Shell Details
    Resolution(High) 3.098
    Resolution(Low) 3.178
    Percent Possible(All) 98.33
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.098
    Resolution(Low) 48.93
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 254809
    Number of Reflections(Observed) 254809
    Number of Reflections(R-Free) 12741
    Percent Reflections(Observed) 98.95
    R-Factor(All) 0.1853
    R-Factor(Observed) 0.1853
    R-Work 0.1829
    R-Free 0.2318
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 83.7225
    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) 3.098
    Shell Resolution(Low) 3.178
    Number of Reflections(R-Free) 927
    Number of Reflections(R-Work) 17610
    R-Factor(R-Work) 0.307
    R-Factor(R-Free) 0.335
    Percent Reflections(Observed) 98.33
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scbond_it 6.68
    r_mcangle_it 10.964
    r_mcbond_it 6.927
    r_gen_planes_refined 0.008
    r_chiral_restr 0.121
    r_dihedral_angle_4_deg 19.538
    r_dihedral_angle_3_deg 24.456
    r_dihedral_angle_2_deg 34.992
    r_dihedral_angle_1_deg 8.494
    r_angle_refined_deg 1.748
    r_bond_refined_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 19120
    Nucleic Acid Atoms 32911
    Heterogen Atoms 56
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XDS
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.8.0021
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5 version: 5.8.0021