POP-OUT | CLOSE

An Information Portal to 107620 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1ADQ
  •   Crystallization Hide
    Crystallization Experiments
    Method vapor diffusion - hanging drop
    pH 7
    Details CRYSTALS WERE GROWN BY HANGING DROP VAPOR DIFFUSION. THE HANGING DROPS CONSISTED OF 2UL OF PROTEIN SOLUTION CONTAINING EACH PROTEIN AT 1MG/ML IN 0.1 % SODIUM AZIDE, 20MM TRIS-HCL AT PH 7.0, MIXED WITH AN EQUAL VOLUME OF THE RESERVOIR SOLUTION TO BE SCREENED. CRYSTALS WERE OBTAINED WITH RESERVOIR SOLUTIONS CONTAINING 17.5 - 22.5 % (W/V) POLYETHYLENE GLYCOL (MEAN MW 8000) IN 0.1 % SODIUM AZIDE, 100MM TRIS-HCL, PH 7.0, AT TEMPERATURES BETWEEN 17.5 AND 21.5 (CELSIUS)., vapor diffusion - hanging drop
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 160.35 α = 90
    b = 81.95 β = 98.27
    c = 64.24 γ = 90
     
    Space Group
    Space Group Name:    C 1 2 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 278
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type RIGAKU RAXIS II
    Details COLLIMATOR
    Collection Date 1994-06
     
    Diffraction Radiation
    Monochromator GRAPHITE
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU RU200
    Wavelength 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 3.0
    Resolution(High) 3.15
    Resolution(Low) 15
    Number Reflections(Observed) 14109
    Percent Possible(Observed) 98.3
    R Merge I(Observed) 0.113
    B(Isotropic) From Wilson Plot 25.4
    Redundancy 3.1
     
    High Resolution Shell Details
    Resolution(High) 3.15
    Resolution(Low) 3.31
    Percent Possible(All) 98.8
    R Merge I(Observed) 0.265
    Mean I Over Sigma(Observed) 2.8
    Redundancy 3.1
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.15
    Resolution(Low) 8.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 11603
    Number of Reflections(R-Free) 756
    Percent Reflections(Observed) 86.0
    R-Factor(Observed) 0.225
    R-Work 0.225
    R-Free 0.289
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model GROUPED B-FACTOR REFINEMENT
    Mean Isotropic B Value 33.1
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.15
    Shell Resolution(Low) 3.26
    Number of Reflections(R-Free) 53
    Number of Reflections(R-Work) 902
    R-Factor(R-Work) 0.288
    R-Factor(R-Free) 0.367
    R-Free Error 0.05
    Percent Reflections(Observed) 70.2
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    x_improper_angle_d 1.06
    x_bond_d 0.005
    x_angle_deg 1.18
    x_dihedral_angle_d 26.47
     
    Coordinate Error
    Luzzati ESD(Observed) 0.41
    Luzzati Sigma A(Observed) 0.45
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.52
    Luzzati Sigma A(R-Free Set) 0.51
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4977
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 0
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) CCP4
    Structure Solution AMORE
    Structure Refinement X-PLOR 3.1
     
    Software
    refinement X-PLOR version: 3.1
    model building AMORE
    data reduction CCP4
    data collection DENZO