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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
4DCS
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 6.5
    Temperature 293.0
    Details 4% to 10% PEG 3350 v/w, 100 mM Mes, 300 mM amonium sulfate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 63.3 α = 90
    b = 65.79 β = 90
    c = 111.43 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 ADSC QUANTUM 315r
    Collection Date 2009-09-06
     
    Diffraction Radiation
    Monochromator Si(111) monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID23-1
    Wavelength List 1.282
    Site ESRF
    Beamline ID23-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.25
    Resolution(Low) 20
    Number Reflections(All) 22133
    Number Reflections(Observed) 22133
    Percent Possible(Observed) 97.3
    R Merge I(Observed) 0.102
    Redundancy 6.9
     
    High Resolution Shell Details
    Resolution(High) 2.25
    Resolution(Low) 2.35
    Percent Possible(All) 92.1
    R Merge I(Observed) 0.406
    Mean I Over Sigma(Observed) 5.0
    R-Sym I(Observed) 0.406
    Redundancy 6.9
    Number Unique Reflections(All) 2523
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.25
    Resolution(Low) 19.93
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 20392
    Number of Reflections(Observed) 20392
    Number of Reflections(R-Free) 2294
    Percent Reflections(Observed) 99.74
    R-Factor(All) 0.21915
    R-Factor(Observed) 0.21915
    R-Work 0.21382
    R-Free 0.26692
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 38.603
    Anisotropic B[1][1] 0.0
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.0
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 0.0
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.25
    Shell Resolution(Low) 2.308
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 1331
    R-Factor(R-Work) 0.279
    R-Factor(R-Free) 0.326
    Percent Reflections(Observed) 99.87
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.003
    r_chiral_restr 0.078
    r_dihedral_angle_4_deg 18.842
    r_dihedral_angle_3_deg 15.337
    r_dihedral_angle_2_deg 36.0
    r_dihedral_angle_1_deg 5.383
    r_angle_refined_deg 1.147
    r_bond_refined_d 0.007
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3212
    Nucleic Acid Atoms 0
    Heterogen Atoms 33
    Solvent Atoms 91
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADSC Quantum
    Data Reduction (intensity integration) XDS package
    Data Reduction (data scaling) XDS package
    Structure Solution AMoRE
    Structure Refinement REFMAC 5.6.0117
     
    Software
    refinement REFMAC version: 5.6.0117
    model building AMoRE
    data collection ADSC version: Quantum