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X-RAY DIFFRACTION
Materials and Methods page
1YXS
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 6.5
    Temperature 277.0
    Details Na Acetate, Imidazole, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 99.32 α = 90
    b = 99.32 β = 90
    c = 80.56 γ = 120
     
    Space Group
    Space Group Name:    P 65
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Collection Date 2002-07-09
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ALS BEAMLINE 8.3.1
    Site ALS
    Beamline 8.3.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 1.5
    Observed Criterion Sigma(I) 1.5
    Resolution(High) 2.2
    Resolution(Low) 84.51
    Number Reflections(All) 0
    Number Reflections(Observed) 23005
    Percent Possible(Observed) 99.8
     
    High Resolution Shell Details
    Resolution(High) 2.2
    Resolution(Low) 2.26
    Percent Possible(All) 100.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.2
    Resolution(Low) 84.51
    Cut-off Sigma(F) 1.5
    Number of Reflections(all) 23005
    Number of Reflections(Observed) 21771
    Number of Reflections(R-Free) 1178
    Percent Reflections(Observed) 99.77
    R-Factor(All) 0.19724
    R-Factor(Observed) 0.19724
    R-Work 0.19508
    R-Free 0.23668
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 27.464
    Anisotropic B[1][1] 1.49
    Anisotropic B[1][2] 0.74
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 1.49
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.23
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2
    Shell Resolution(Low) 2.257
    Number of Reflections(R-Free) 77
    Number of Reflections(R-Work) 1603
    R-Factor(R-Work) 0.258
    R-Factor(R-Free) 0.304
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 2.584
    r_scbond_it 1.531
    r_mcangle_it 1.089
    r_mcbond_it 0.575
    r_symmetry_hbond_refined 0.158
    r_symmetry_vdw_other 0.297
    r_symmetry_vdw_refined 0.182
    r_bond_refined_d 0.011
    r_bond_other_d 0.002
    r_angle_refined_deg 1.385
    r_angle_other_deg 0.906
    r_dihedral_angle_1_deg 2.941
    r_chiral_restr 0.093
    r_gen_planes_refined 0.004
    r_gen_planes_other 0.002
    r_nbd_refined 0.197
    r_nbd_other 0.237
    r_nbtor_other 0.082
    r_xyhbond_nbd_refined 0.179
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2231
    Nucleic Acid Atoms 0
    Heterogen Atoms 5
    Solvent Atoms 174
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) CCP4 (SCALA)
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.1.25
     
    Software
    refinement REFMAC version: 5.1.25