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An Information Portal to 108124 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4I4G
  •   Crystallization Hide
    Crystallization Experiments
    Method microbatch under oil
    pH 6
    Temperature 298.0
    Details PEG 3350, sodium malonate, pH 6.0, microbatch under oil, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 76.65 α = 90
    b = 99.58 β = 90
    c = 126.38 γ = 90
     
    Space Group
    Space Group Name:    I 2 2 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 200
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Details mirrors
    Collection Date 2012-02-12
     
    Diffraction Radiation
    Monochromator Yale mirrors
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL7-1
    Wavelength List 1.127
    Site SSRL
    Beamline BL7-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.72
    Resolution(Low) 49.8
    Number Reflections(All) 12248
    Number Reflections(Observed) 12236
    Percent Possible(Observed) 99.9
    R Merge I(Observed) 0.072
    Redundancy 9.4
     
    High Resolution Shell Details
    Resolution(High) 2.718
    Resolution(Low) 2.79
    Percent Possible(All) 98.9
    R Merge I(Observed) 0.505
    Mean I Over Sigma(Observed) 3.5
    Redundancy 5.4
    Number Unique Reflections(All) 845
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.718
    Resolution(Low) 49.79
    Cut-off Sigma(I) 2.0
    Number of Reflections(all) 12733
    Number of Reflections(Observed) 12710
    Number of Reflections(R-Free) 661
    Percent Reflections(Observed) 99.82
    R-Factor(Observed) 0.20661
    R-Work 0.2034
    R-Free 0.26971
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 91.946
    Anisotropic B[1][1] 0.03
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.04
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.01
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.718
    Shell Resolution(Low) 2.789
    Number of Reflections(R-Free) 36
    Number of Reflections(R-Work) 863
    R-Factor(R-Work) 0.262
    R-Factor(R-Free) 0.339
    Percent Reflections(Observed) 99.01
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.007
    r_chiral_restr 0.092
    r_dihedral_angle_4_deg 23.294
    r_dihedral_angle_3_deg 20.592
    r_dihedral_angle_2_deg 35.74
    r_dihedral_angle_1_deg 6.281
    r_angle_refined_deg 1.894
    r_bond_refined_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3695
    Nucleic Acid Atoms 0
    Heterogen Atoms 92
    Solvent Atoms 5
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blu-Ice
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Solution PHASER
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building PHASER
    data collection Blu-Ice