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X-RAY DIFFRACTION
Materials and Methods page
4J3E
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6
    Temperature 278.0
    Details 100 mM ADA, pH 6, 50% SATURATED AMMONIUM SULFATE, 5% PEG200, 5 mM DTT RESERVOIR MIXED IN EQUAL VOLUME WITH THE PROTEIN AT 10 mg/mL, VAPOR DIFFUSION, HANGING DROP, temperature 278K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 42.89 α = 90
    b = 67.66 β = 90
    c = 67.17 γ = 90
     
    Space Group
    Space Group Name:    C 2 2 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 4
    Collection Date 2004-04-19
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X8C
    Wavelength List 1.0000
    Site NSLS
    Beamline X8C
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Resolution(High) 1.91
    Resolution(Low) 50
    Number Reflections(Observed) 7488
    Percent Possible(Observed) 95.3
    R Merge I(Observed) 0.039
    B(Isotropic) From Wilson Plot 10.1
    Redundancy 3.8
     
    High Resolution Shell Details
    Resolution(High) 1.91
    Resolution(Low) 1.98
    Percent Possible(All) 85.9
    R Merge I(Observed) 0.064
    Mean I Over Sigma(Observed) 29.8
    Redundancy 2.9
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.91
    Resolution(Low) 24.63
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 7488
    Number of Reflections(Observed) 7488
    Number of Reflections(R-Free) 384
    Percent Reflections(Observed) 95.6
    R-Factor(Observed) 0.196
    R-Work 0.194
    R-Free 0.239
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 14.6
    Anisotropic B[1][1] -0.59
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.39
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.98
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.91
    Shell Resolution(Low) 2.0
    Number of Reflections(Observed) 785
    Number of Reflections(R-Free) 48
    R-Factor(R-Work) 0.17
    R-Factor(R-Free) 0.238
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0
    Shell Resolution(Low) 2.1
    Number of Reflections(Observed) 901
    Number of Reflections(R-Free) 54
    R-Factor(R-Work) 0.192
    R-Factor(R-Free) 0.243
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1
    Shell Resolution(Low) 2.23
    Number of Reflections(Observed) 904
    Number of Reflections(R-Free) 42
    R-Factor(R-Work) 0.206
    R-Factor(R-Free) 0.293
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.23
    Shell Resolution(Low) 2.41
    Number of Reflections(Observed) 894
    Number of Reflections(R-Free) 48
    R-Factor(R-Work) 0.196
    R-Factor(R-Free) 0.226
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.41
    Shell Resolution(Low) 2.65
    Number of Reflections(Observed) 910
    Number of Reflections(R-Free) 48
    R-Factor(R-Work) 0.189
    R-Factor(R-Free) 0.233
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.65
    Shell Resolution(Low) 3.03
    Number of Reflections(Observed) 900
    Number of Reflections(R-Free) 46
    R-Factor(R-Work) 0.206
    R-Factor(R-Free) 0.293
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.03
    Shell Resolution(Low) 3.82
    Number of Reflections(Observed) 906
    Number of Reflections(R-Free) 48
    R-Factor(R-Work) 0.187
    R-Factor(R-Free) 0.224
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.82
    Shell Resolution(Low) 50.0
    Number of Reflections(Observed) 904
    Number of Reflections(R-Free) 50
    Number of Reflections(R-Work) 985
    R-Factor(R-Work) 0.196
    R-Factor(R-Free) 0.214
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 3.2
    c_scbond_it 2.24
    c_mcangle_it 2.16
    c_mcbond_it 1.4
    c_improper_angle_d 1.13
    c_dihedral_angle_d 20.9
    c_angle_deg 1.1
    c_bond_d 0.004
     
    Coordinate Error
    Luzzati ESD(Observed) 0.2
    Luzzati Sigma A(Observed) 0.05
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.26
    Luzzati Sigma A(R-Free Set) 0.13
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 698
    Nucleic Acid Atoms 0
    Heterogen Atoms 45
    Solvent Atoms 128
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution MOLREP
    Structure Refinement CNX 2005
     
    Software
    refinement CNX version: 2005
    model building MOLREP
    data collection HKL-2000