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An Information Portal to 105212 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1YYL
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.6
    Temperature 293.0
    Details PEG 4000, isopropanol, sodium citrate, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 51.52 α = 90
    b = 157.84 β = 93.55
    c = 109.92 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARRESEARCH
    Collection Date 2003-06-05
     
    Diffraction Radiation
    Monochromator SI (220)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-ID
    Wavelength List 1.000
    Site APS
    Beamline 22-ID
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.75
    Resolution(Low) 20
    Percent Possible(Observed) 91.8
    R Merge I(Observed) 0.126
    B(Isotropic) From Wilson Plot 14.5
    Redundancy 5.0
     
    High Resolution Shell Details
    Resolution(High) 2.75
    Resolution(Low) 2.85
    Percent Possible(All) 46.4
    R Merge I(Observed) 0.278
    Mean I Over Sigma(Observed) 1.5
    R-Sym I(Observed) 0.278
    Redundancy 2.1
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.75
    Resolution(Low) 19.94
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 45373
    Number of Reflections(Observed) 39944
    Number of Reflections(R-Free) 4002
    Percent Reflections(Observed) 88.0
    R-Factor(Observed) 0.202
    R-Work 0.202
    R-Free 0.275
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model RESTRAINED
    Mean Isotropic B Value 28.1
    Anisotropic B[1][1] -9.87
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 1.44
    Anisotropic B[2][2] -1.11
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 10.99
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.75
    Shell Resolution(Low) 2.92
    Number of Reflections(R-Free) 370
    Number of Reflections(R-Work) 3370
    R-Factor(R-Work) 0.329
    R-Factor(R-Free) 0.383
    R-Free Error 0.02
    Percent Reflections(Observed) 49.8
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    c_improper_angle_d 1.0
    c_dihedral_angle_d 26.4
    c_angle_deg 2.4
    c_bond_d 0.248
     
    Coordinate Error
    Luzzati ESD(Observed) 0.33
    Luzzati Sigma A(Observed) 0.43
    Luzzati Resolution Cutoff(Low) 5.0
    Luzzati ESD(R-Free Set) 0.45
    Luzzati Sigma A(R-Free Set) 0.58
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 11822
    Nucleic Acid Atoms 0
    Heterogen Atoms 224
    Solvent Atoms 324
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution AMORE
    Structure Refinement CNS 1.1
     
    Software
    refinement CNS version: 1.1