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An Information Portal to 105339 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4IIW
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 6.5
    Temperature 295.0
    Details Protein: 7.1mg/mL, 0.25M Sodium cloride, 0.01M Tris-HCl pH 8.3, Screen: Trap96 (E8), 0.2M Ammonium sulfate, 0.1M Cacodyl. pH 6.5, 30% (w/v) PEG 8000, VAPOR DIFFUSION, SITTING DROP, temperature 295K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 126.9 α = 90
    b = 126.9 β = 90
    c = 115.58 γ = 90
     
    Space Group
    Space Group Name:    I 4
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type MARMOSAIC 300 mm CCD
    Details Beryllium lenses
    Collection Date 2012-12-10
     
    Diffraction Radiation
    Monochromator Diamond
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type APS BEAMLINE 21-ID-G
    Wavelength List 0.97856
    Site APS
    Beamline 21-ID-G
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.6
    Resolution(Low) 30
    Number Reflections(All) 55066
    Number Reflections(Observed) 55066
    Percent Possible(Observed) 99.6
    R Merge I(Observed) 0.063
    B(Isotropic) From Wilson Plot 69.9
    Redundancy 3.9
     
    High Resolution Shell Details
    Resolution(High) 2.6
    Resolution(Low) 2.64
    Percent Possible(All) 100.0
    R Merge I(Observed) 0.567
    Mean I Over Sigma(Observed) 2.4
    Redundancy 3.9
    Number Unique Reflections(All) 2698
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method SAD
    reflnsShellList 2.6
    Resolution(Low) 29.91
    Number of Reflections(all) 26680
    Number of Reflections(Observed) 26680
    Number of Reflections(R-Free) 1414
    Percent Reflections(Observed) 99.87
    R-Factor(All) 0.17317
    R-Factor(Observed) 0.17317
    R-Work 0.17096
    R-Free 0.215
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Isotropic Thermal Model Thermal Factors Individually Isotropically Refined
    Mean Isotropic B Value 54.203
    Anisotropic B[1][1] -0.17
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.17
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.34
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.601
    Shell Resolution(Low) 2.668
    Number of Reflections(Observed) 1894
    Number of Reflections(R-Free) 100
    Number of Reflections(R-Work) 1894
    R-Factor(R-Work) 0.263
    R-Factor(R-Free) 0.348
    Percent Reflections(Observed) 98.62
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.566
    r_scbond_it 2.969
    r_mcangle_it 1.833
    r_mcbond_other 0.232
    r_bond_refined_d 0.011
    r_bond_other_d 0.001
    r_angle_refined_deg 1.304
    r_angle_other_deg 0.794
    r_dihedral_angle_1_deg 2.575
    r_dihedral_angle_2_deg 33.549
    r_dihedral_angle_3_deg 11.109
    r_dihedral_angle_4_deg 19.279
    r_chiral_restr 0.078
    r_gen_planes_refined 0.005
    r_gen_planes_other 0.001
    r_mcbond_it 0.974
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4836
    Nucleic Acid Atoms 0
    Heterogen Atoms 46
    Solvent Atoms 188
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Blu Max
    Data Reduction (intensity integration) HKL-3000
    Data Reduction (data scaling) HKL-3000
    Structure Solution PHENIX
    Structure Refinement REFMAC 5.5.0102
     
    Software
    refinement REFMAC version: 5.5.0102
    model building PHENIX
    data collection Blu version: Max