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X-RAY DIFFRACTION
Materials and Methods page
1YCI
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7.5
    Temperature 298.0
    Details 1.2M AMMONIUM SULPHATE, 4% PEG400, 0.1M HEPES PH7.5 ARGON ATMOSPHERE, 28MG/ML PROTEIN WITH 1MM FE(II), 10MM N-(CARBOXYCARBONYL)-D-PHENYLALANINE, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 86.85 α = 90
    b = 86.85 β = 90
    c = 150.52 γ = 90
     
    Space Group
    Space Group Name:    P 41 21 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Collection Date 2004-11-10
     
    Diffraction Radiation
    Monochromator double crystal Si(III)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SRS BEAMLINE PX10.1
    Wavelength 1.488
    Wavelength List 1.488
    Site SRS
    Beamline PX10.1
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 2.7
    Resolution(Low) 43.45
    Number Reflections(All) 16510
    Number Reflections(Observed) 16510
    Percent Possible(Observed) 99.9
    R Merge I(Observed) 0.082
    B(Isotropic) From Wilson Plot 53.0
    Redundancy 7.1
     
    High Resolution Shell Details
    Resolution(High) 2.7
    Resolution(Low) 2.8
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.446
    Mean I Over Sigma(Observed) 4.9
    Redundancy 7.1
    Number Unique Reflections(All) 1619
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method ISOMORPHOUS WITH 1H2N
    reflnsShellList 2.7
    Resolution(Low) 43.45
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 15709
    Number of Reflections(Observed) 15709
    Number of Reflections(R-Free) 1589
    Percent Reflections(Observed) 95.3
    R-Factor(Observed) 0.21
    R-Work 0.21
    R-Free 0.244
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 58.3
    Anisotropic B[1][1] -6.89
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -6.89
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 13.79
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.7
    Shell Resolution(Low) 2.8
    Number of Reflections(R-Free) 137
    Number of Reflections(R-Work) 1263
    R-Factor(R-Work) 0.356
    R-Factor(R-Free) 0.416
    R-Free Error 0.036
    Percent Reflections(Observed) 86.6
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_scangle_it 3.07
    c_scbond_it 1.88
    c_mcangle_it 2.25
    c_mcbond_it 1.27
    c_improper_angle_d 0.75
    c_bond_d 0.01
    c_angle_deg 1.2
    c_dihedral_angle_d 24.1
     
    Coordinate Error
    Luzzati ESD(Observed) 0.33
    Luzzati Sigma A(Observed) 0.35
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.41
    Luzzati Sigma A(R-Free Set) 0.42
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2715
    Nucleic Acid Atoms 0
    Heterogen Atoms 50
    Solvent Atoms 90
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Refinement CNS 1.1
     
    Software
    refinement CNS version: 1.1
    data reduction SCALEPACK
    data collection DENZO