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X-RAY DIFFRACTION
Materials and Methods page
2BYP
  •   Crystallization Hide
    Crystallization Experiments
    pH 7.5
    Details 11-14% PEG-4000, 0.1 M TRIS, PH 7.5, 0.4 M MGCL2
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 130.28 α = 90
    b = 140.04 β = 90
    c = 153.39 γ = 90
     
    Space Group
    Space Group Name:    I 2 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 8.2.1
    Wavelength 0.976
    Site ALS
    Beamline 8.2.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.07
    Resolution(Low) 50
    Number Reflections(Observed) 86601
    Percent Possible(Observed) 99.9
    R Merge I(Observed) 0.08
    Redundancy 5.1
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.07
    Resolution(Low) 20.0
    Number of Reflections(Observed) 83709
    Number of Reflections(R-Free) 1700
    Percent Reflections(Observed) 99.8
    R-Factor(Observed) 0.174
    R-Work 0.173
    R-Free 0.214
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 38.98
    Anisotropic B[1][1] 1.09
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.84
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.25
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.07
    Shell Resolution(Low) 2.12
    Number of Reflections(R-Free) 121
    Number of Reflections(R-Work) 5925
    R-Factor(R-Work) 0.231
    R-Factor(R-Free) 0.282
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 2.588
    r_scbond_it 1.802
    r_mcangle_it 1.194
    r_mcbond_it 1.008
    r_nbd_refined 0.185
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.005
    r_chiral_restr 0.085
    r_dihedral_angle_4_deg 19.695
    r_dihedral_angle_3_deg 15.305
    r_dihedral_angle_2_deg 37.1
    r_dihedral_angle_1_deg 7.238
    r_angle_other_deg 0.837
    r_angle_refined_deg 1.416
    r_bond_other_d 0.002
    r_bond_refined_d 0.013
    r_nbd_other 0.193
    r_nbtor_refined 0.172
    r_nbtor_other 0.083
    r_xyhbond_nbd_refined 0.184
    r_symmetry_vdw_refined 0.211
    r_symmetry_vdw_other 0.241
    r_symmetry_hbond_refined 0.231
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 8865
    Nucleic Acid Atoms 0
    Heterogen Atoms 14
    Solvent Atoms 1042
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution AMORE
    Structure Refinement REFMAC 5.2.0005
     
    Software
    refinement REFMAC version: 5.2.0005
    model building AMORE