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An Information Portal to 105025 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
2YCQ
  •   Crystallization Hide
    Crystallization Experiments
    pH 7.8
    Details 0.1M HEPES PH 7.8, 0.1M MAGNESIUM NITRATE, 14% W/V PEG 3350, 16% V/V ETHYLENE GLYCOL
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 91.04 α = 90
    b = 91.04 β = 90
    c = 93.32 γ = 120
     
    Space Group
    Space Group Name:    P 32 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARRESEARCH
    Collection Date 2007-06-09
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-BM
    Wavelength 1.0
    Site APS
    Beamline 22-BM
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.05
    Resolution(Low) 50
    Number Reflections(Observed) 26596
    Percent Possible(Observed) 93.2
    R Merge I(Observed) 0.06
    Redundancy 3.1
     
    High Resolution Shell Details
    Resolution(High) 2.05
    Resolution(Low) 2.1
    Percent Possible(All) 95.9
    R Merge I(Observed) 0.4
    Mean I Over Sigma(Observed) 2.6
    Redundancy 3.0
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.05
    Resolution(Low) 50.0
    Number of Reflections(Observed) 24780
    Number of Reflections(R-Free) 1330
    Percent Reflections(Observed) 91.53
    R-Factor(Observed) 0.2111
    R-Work 0.20915
    R-Free 0.24729
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 45.854
    Anisotropic B[1][1] -0.24
    Anisotropic B[1][2] -0.12
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.24
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.36
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.05
    Shell Resolution(Low) 2.103
    Number of Reflections(R-Free) 112
    Number of Reflections(R-Work) 1882
    R-Factor(R-Work) 0.258
    R-Factor(R-Free) 0.27
    Percent Reflections(Observed) 94.77
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 2.881
    r_scbond_it 1.775
    r_mcangle_it 1.237
    r_mcbond_other 0.146
    r_mcbond_it 0.669
    r_gen_planes_other 0.001
    r_gen_planes_refined 0.005
    r_chiral_restr 0.078
    r_dihedral_angle_4_deg 20.334
    r_dihedral_angle_3_deg 15.103
    r_dihedral_angle_2_deg 38.155
    r_dihedral_angle_1_deg 5.234
    r_angle_other_deg 0.86
    r_angle_refined_deg 1.324
    r_bond_other_d 0.001
    r_bond_refined_d 0.013
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2274
    Nucleic Acid Atoms 0
    Heterogen Atoms 34
    Solvent Atoms 163
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL3000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution MOLREP
    Structure Refinement REFMAC 5.5.0104
     
    Software
    refinement REFMAC version: 5.5.0104
    model building MOLREP