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X-RAY DIFFRACTION
Materials and Methods page
2YNY
  •   Crystallization Hide
    Crystallization Experiments
    Details 16% (W/V) PEG 4000, 80 MM SODIUM ACETATE, 100 MM HEPES PH 7.5
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 34.81 α = 90
    b = 40.36 β = 93.51
    c = 98.62 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARRESEARCH
    Collection Date 2009-06-01
     
    Diffraction Radiation
    Monochromator SI(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SLS BEAMLINE X10SA
    Wavelength 0.82660
    Site SLS
    Beamline X10SA
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.35
    Resolution(Low) 38
    Number Reflections(Observed) 57902
    Percent Possible(Observed) 96.0
    R Merge I(Observed) 0.06
    Redundancy 4.3
     
    High Resolution Shell Details
    Resolution(High) 1.35
    Resolution(Low) 1.43
    Percent Possible(All) 89.6
    R Merge I(Observed) 0.63
    Mean I Over Sigma(Observed) 1.98
    Redundancy 3.22
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.35
    Resolution(Low) 37.95
    Number of Reflections(Observed) 55024
    Number of Reflections(R-Free) 2878
    Percent Reflections(Observed) 95.98
    R-Factor(Observed) 0.13609
    R-Work 0.13288
    R-Free 0.19844
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 15.992
    Anisotropic B[1][1] -0.3
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.94
    Anisotropic B[2][2] -0.02
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.43
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.35
    Shell Resolution(Low) 1.385
    Number of Reflections(R-Free) 175
    Number of Reflections(R-Work) 3747
    R-Factor(R-Work) 0.236
    R-Factor(R-Free) 0.272
    Percent Reflections(Observed) 88.15
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_rigid_bond_restr 4.526
    r_scangle_it 27.174
    r_scbond_it 19.517
    r_mcangle_it 9.013
    r_mcbond_other 3.818
    r_mcbond_it 6.899
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.009
    r_chiral_restr 0.146
    r_dihedral_angle_4_deg 20.088
    r_dihedral_angle_3_deg 14.749
    r_dihedral_angle_2_deg 37.083
    r_dihedral_angle_1_deg 4.478
    r_angle_other_deg 1.081
    r_angle_refined_deg 1.68
    r_bond_other_d 0.001
    r_bond_refined_d 0.021
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2414
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 264
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) XDS
    Data Reduction (data scaling) XSCALE
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.5.0109
     
    Software
    refinement REFMAC version: 5.5.0109
    model building MOLREP