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X-RAY DIFFRACTION
Materials and Methods page
2EBD
  •   Crystallization Hide
    Crystallization Experiments
    Method LIQUID DIFFUSION
    pH 4.5
    Temperature 293.0
    Details 40% 1,2 Propanediol, 0.1M, Acetate, pH 4.5, LIQUID DIFFUSION, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 70.7 α = 90
    b = 71.66 β = 90
    c = 129.66 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 180
     
    Diffraction Detector
    Detector CCD
    Type RIGAKU JUPITER 210
    Collection Date 2006-09-21
     
    Diffraction Radiation
    Monochromator Si
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SPRING-8 BEAMLINE BL26B2
    Wavelength List 1.000
    Site SPRING-8
    Beamline BL26B2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.1
    Resolution(Low) 50
    Number Reflections(All) 39264
    Number Reflections(Observed) 39264
    Percent Possible(Observed) 100.0
    R Merge I(Observed) 0.086
    B(Isotropic) From Wilson Plot 14.2
    Redundancy 6.9
     
    High Resolution Shell Details
    Resolution(High) 2.1
    Resolution(Low) 2.18
    Percent Possible(All) 99.9
    R Merge I(Observed) 0.391
    Redundancy 6.5
    Number Unique Reflections(All) 3860
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.1
    Resolution(Low) 19.88
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 39264
    Number of Reflections(Observed) 39131
    Number of Reflections(R-Free) 1945
    Percent Reflections(Observed) 99.9
    R-Factor(Observed) 0.196
    R-Work 0.196
    R-Free 0.226
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 29.8
    Anisotropic B[1][1] -0.19
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -6.61
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 6.8
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.1
    Shell Resolution(Low) 2.23
    Number of Reflections(R-Free) 322
    Number of Reflections(R-Work) 6088
    R-Factor(R-Work) 0.247
    R-Factor(R-Free) 0.329
    R-Free Error 0.018
    Percent Reflections(Observed) 100.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 3.22
    c_scbond_it 2.21
    c_mcangle_it 2.05
    c_mcbond_it 1.34
    c_improper_angle_d 0.7
    c_dihedral_angle_d 22.6
    c_angle_deg 1.3
    c_bond_d 0.006
     
    Coordinate Error
    Luzzati ESD(Observed) 0.23
    Luzzati Sigma A(Observed) 0.21
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.28
    Luzzati Sigma A(R-Free Set) 0.3
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4738
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 383
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BSS
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution CCP4-molrep
    Structure Refinement CNS 1.1
     
    Software
    refinement CNS version: 1.1