POP-OUT | CLOSE

An Information Portal to 105212 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4DWU
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 5.9
    Temperature 277.0
    Details 0.2 M ammonium sulfate, 32% w/v PEG4000, pH 5.9, VAPOR DIFFUSION, HANGING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 57.92 α = 90
    b = 67.62 β = 90
    c = 68.39 γ = 90
     
    Space Group
    Space Group Name:    P 21 21 21
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 225 mm CCD
    Details Rosenbaum-Rock vertical focusing mirror
    Collection Date 2010-03-14
     
    Diffraction Radiation
    Monochromator Rosenbaum-Rock double crystal Si(220)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 22-BM
    Wavelength List 0.91339
    Site APS
    Beamline 22-BM
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 1.44
    Resolution(Low) 44.2
    Number Reflections(All) 46314
    Number Reflections(Observed) 43419
    Percent Possible(Observed) 93.75
    R Merge I(Observed) 0.047
    B(Isotropic) From Wilson Plot 13.8
    Redundancy 4.3
     
    High Resolution Shell Details
    Resolution(High) 1.44
    Resolution(Low) 1.482
    Percent Possible(All) 57.53
    R Merge I(Observed) 0.397
    Mean I Over Sigma(Observed) 3.2
    Redundancy 3.7
    Number Unique Reflections(All) 3356
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.44
    Resolution(Low) 44.2
    Cut-off Sigma(I) 2.0
    Number of Reflections(all) 46314
    Number of Reflections(Observed) 43419
    Number of Reflections(R-Free) 2353
    Percent Reflections(Observed) 93.75
    R-Factor(Observed) 0.18059
    R-Work 0.17937
    R-Free 0.20224
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model ISOTROPIC
    Mean Isotropic B Value 11.981
    Anisotropic B[1][1] -3.78
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.47
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 3.3
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.44
    Shell Resolution(Low) 1.482
    Number of Reflections(Observed) 1931
    Number of Reflections(R-Free) 116
    Number of Reflections(R-Work) 1931
    R-Factor(R-Work) 0.33
    R-Factor(R-Free) 0.401
    Percent Reflections(Observed) 57.53
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_other 0.006
    r_gen_planes_refined 0.008
    r_chiral_restr 0.083
    r_dihedral_angle_4_deg 17.266
    r_dihedral_angle_3_deg 16.439
    r_dihedral_angle_2_deg 38.872
    r_dihedral_angle_1_deg 4.967
    r_angle_other_deg 0.877
    r_angle_refined_deg 2.743
    r_bond_other_d 0.001
    r_bond_refined_d 0.011
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2182
    Nucleic Acid Atoms 0
    Heterogen Atoms 115
    Solvent Atoms 186
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHASER
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building PHASER
    data collection HKL-2000