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An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4FS5
  •   Crystallization Hide
    Crystallization Experiments
    Method TEMPERATURE CONTROL
    pH 7
    Temperature 293.0
    Details 2.0mM DNA, 20mM Na cacodylate, 30% 2-methyl-2,4-pentainediol, 500mM MgCl2, pH 7.0, TEMPERATURE CONTROL, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 18.59 α = 90
    b = 18.59 β = 90
    c = 72.7 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 ADSC QUANTUM 315
    Collection Date 2008-02-13
     
    Diffraction Radiation
    Monochromator Fixed exit Si (111) double crystal monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SPRING-8 BEAMLINE BL38B1
    Wavelength List 1
    Site SPRING-8
    Beamline BL38B1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.3
    Resolution(Low) 24.2
    Number Reflections(All) 6915
    Number Reflections(Observed) 6868
    Percent Possible(Observed) 99.2
    R Merge I(Observed) 0.054
    B(Isotropic) From Wilson Plot 12.3
    Redundancy 6.6
     
    High Resolution Shell Details
    Resolution(High) 1.3
    Resolution(Low) 1.37
    Percent Possible(All) 99.0
    R Merge I(Observed) 0.12
    Redundancy 6.6
    Number Unique Reflections(All) 1006
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.3
    Resolution(Low) 9.682
    Cut-off Sigma(F) 0.16
    Number of Reflections(Observed) 6815
    Number of Reflections(R-Free) 322
    Percent Reflections(Observed) 98.6
    R-Factor(Observed) 0.2133
    R-Work 0.2109
    R-Free 0.2635
    R-Free Selection Details RABDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 14.8432
    Anisotropic B[1][1] -0.5405
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.5405
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 1.0809
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.3001
    Shell Resolution(Low) 1.6366
    Number of Reflections(R-Free) 162
    Number of Reflections(R-Work) 3235
    R-Factor(R-Work) 0.2038
    R-Factor(R-Free) 0.2744
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.6366
    Shell Resolution(Low) 9.682
    Number of Reflections(R-Free) 160
    Number of Reflections(R-Work) 3258
    R-Factor(R-Work) 0.2129
    R-Factor(R-Free) 0.2601
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 29.583
    f_plane_restr 0.015
    f_chiral_restr 0.082
    f_angle_d 1.849
    f_bond_d 0.014
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 0
    Nucleic Acid Atoms 240
    Heterogen Atoms 14
    Solvent Atoms 73
     
     
  •   Software and Computing Hide
    Computing
    Data Collection BSS
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution AMoRE
    Structure Refinement PHENIX (phenix.refine: 1.6.4_486)
     
    Software
    refinement PHENIX version: (phenix.refine: 1.6.4_486)
    model building AMoRE
    data collection BSS