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X-RAY DIFFRACTION
Materials and Methods page
3HMT
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 298.0
    Details 2.4 M sodium malonate pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 38.85 α = 90
    b = 38.85 β = 90
    c = 103.69 γ = 120
     
    Space Group
    Space Group Name:    P 32
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Collection Date 2005-03-31
     
    Diffraction Radiation
    Monochromator Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 5ID-B
    Wavelength List 1.00000
    Site APS
    Beamline 5ID-B
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.96
    Resolution(Low) 50
    Number Reflections(All) 23656
    Number Reflections(Observed) 23656
    Percent Possible(Observed) 98.5
    R Merge I(Observed) 0.064
    B(Isotropic) From Wilson Plot 9.5
    Redundancy 2.8
     
    High Resolution Shell Details
    Resolution(High) 1.96
    Resolution(Low) 2.03
    Percent Possible(All) 87.6
    R Merge I(Observed) 0.24
    Mean I Over Sigma(Observed) 2.5
    R-Sym I(Observed) 0.24
    Redundancy 2.2
    Number Unique Reflections(All) 1274
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.0
    Resolution(Low) 34.56
    Number of Reflections(all) 23656
    Number of Reflections(Observed) 21584
    Number of Reflections(R-Free) 1976
    Percent Reflections(Observed) 91.2
    R-Factor(All) 0.206
    R-Factor(Observed) 0.193
    R-Work 0.193
    R-Free 0.243
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 22.0
    Anisotropic B[1][1] -0.53
    Anisotropic B[1][2] 0.55
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.53
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.06
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.0
    Shell Resolution(Low) 2.02
    Number of Reflections(Observed) 412
    Number of Reflections(R-Free) 40
    Number of Reflections(R-Work) 2838
    R-Factor(R-Work) 0.2
    R-Factor(R-Free) 0.215
    R-Free Error 0.016
    Percent Reflections(Observed) 78.4
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 0.76
    c_dihedral_angle_d 24.2
    c_angle_deg 1.3
    c_bond_d 0.006
     
    Coordinate Error
    Luzzati ESD(Observed) 0.21
    Luzzati Sigma A(Observed) 0.13
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.28
    Luzzati Sigma A(R-Free Set) 0.17
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1496
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 145
     
     
  •   Software and Computing Hide
    Computing
    Data Collection DND-CAT
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution CNS
    Structure Refinement CNS 1.1
     
    Software
    refinement CNS version: 1.1
    model building CNS
    data collection DND-CAT