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An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1LJK
  •   Crystallization Hide
    Crystallization Experiments
    Method LIQUID DIFFUSION
    pH 4.6
    Temperature 293.0
    Details Sodium Acetate(0.1M)-Buffer, Sodium Nitrate (0.44M)-Precipitant, Trehalose(0.44M) - Additive, pH 4.6, LIQUID DIFFUSION at 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 28.07 α = 90
    b = 62.94 β = 90.68
    c = 60.41 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 293
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type MARRESEARCH
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU RU200
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.1
    Resolution(Low) 30
    Number Reflections(Observed) 11759
    B(Isotropic) From Wilson Plot 20.7
     
    High Resolution Shell Details
    Resolution(High) 2.1
    Resolution(Low) 2.18
     
     
  •   Refinement Hide
    Refinement Statistics
    reflnsShellList 2.1
    Resolution(Low) 30.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 11759
    Number of Reflections(R-Free) 950
    Percent Reflections(Observed) 95.0
    R-Factor(Observed) 0.171
    R-Work 0.171
    R-Free 0.219
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 22.1
    Anisotropic B[1][1] 4.43
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] -1.61
    Anisotropic B[2][2] -5.03
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.59
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1
    Shell Resolution(Low) 2.23
    Number of Reflections(R-Free) 146
    Number of Reflections(R-Work) 1702
    R-Factor(R-Work) 0.201
    R-Factor(R-Free) 0.239
    R-Free Error 0.02
    Percent Reflections(Observed) 90.1
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 0.72
    c_bond_d 0.005
    c_angle_deg 1.3
    c_dihedral_angle_d 23.2
     
    Coordinate Error
    Luzzati ESD(Observed) 0.2
    Luzzati Sigma A(Observed) 0.17
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.27
    Luzzati Sigma A(R-Free Set) 0.2
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2002
    Nucleic Acid Atoms 0
    Heterogen Atoms 32
    Solvent Atoms 245
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) MAR
    Data Reduction (data scaling) SCALEPACK
    Structure Refinement CNS 0.4
     
    Software
    refinement CNS version: 0.4
    data reduction SCALEPACK
    data collection MAR