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X-RAY DIFFRACTION
Materials and Methods page
2YBM
  •   Crystallization Hide
    Crystallization Experiments
    pH 4.7
    Details 200 MM SODIUM ACETATE PH 4.7, 10% W/V NACL
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 78.2 α = 90
    b = 78.2 β = 90
    c = 38.66 γ = 90
     
    Space Group
    Space Group Name:    P 43 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC
    Details MIRRORS
    Collection Date 2010-05-10
     
    Diffraction Radiation
    Monochromator EMG-T5 KOHZU DOUBLE CRYSTAL MONOCHROMATOR
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-4
    Wavelength 0.939
    Site ESRF
    Beamline ID14-4
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2
    Resolution(Low) 35
    Number Reflections(Observed) 8490
    Percent Possible(Observed) 99.4
    R Merge I(Observed) 0.07
    B(Isotropic) From Wilson Plot 22.554
    Redundancy 60.0
     
    High Resolution Shell Details
    Resolution(High) 2.0
    Resolution(Low) 2.1
    Percent Possible(All) 98.9
    R Merge I(Observed) 0.27
    Mean I Over Sigma(Observed) 2.6
    Redundancy 5.8
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.0
    Resolution(Low) 35.0
    Number of Reflections(Observed) 8038
    Number of Reflections(R-Free) 396
    Percent Reflections(Observed) 98.85
    R-Factor(Observed) 0.21388
    R-Work 0.21249
    R-Free 0.24202
     
    Temperature Factor Modeling
    Mean Isotropic B Value 23.36
    Anisotropic B[1][1] -0.69
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.69
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.39
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0
    Shell Resolution(Low) 2.052
    Number of Reflections(R-Free) 32
    Number of Reflections(R-Work) 573
    R-Factor(R-Work) 0.25
    R-Factor(R-Free) 0.309
    Percent Reflections(Observed) 98.37
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 2.251
    r_scbond_it 1.312
    r_mcangle_it 0.938
    r_mcbond_it 0.476
    r_gen_planes_refined 0.003
    r_chiral_restr 0.081
    r_dihedral_angle_4_deg 17.796
    r_dihedral_angle_3_deg 14.923
    r_dihedral_angle_2_deg 37.574
    r_dihedral_angle_1_deg 5.089
    r_angle_refined_deg 0.984
    r_bond_refined_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1001
    Nucleic Acid Atoms 0
    Heterogen Atoms 2
    Solvent Atoms 44
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALEPACK
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.5.0110
     
    Software
    refinement REFMAC version: 5.5.0110
    model building MOLREP