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X-RAY DIFFRACTION
Materials and Methods page
3QVG
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 8.5
    Temperature 277.0
    Details 30 % PEG4000, 0.1 M Tris, 0.2 M NaAcetate, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 38.14 α = 90
    b = 61.47 β = 90
    c = 163.67 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 RIGAKU SATURN 92
    Collection Date 2011-01-25
     
    Diffraction Radiation
    Monochromator Mirrors
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU MICROMAX-007 HF
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 2.0
    Observed Criterion Sigma(I) 2.0
    Resolution(High) 2.26
    Resolution(Low) 35
    Number Reflections(All) 18358
    Number Reflections(Observed) 18358
    Percent Possible(Observed) 97.5
    R Merge I(Observed) 0.071
    Redundancy 6.3
     
    High Resolution Shell Details
    Resolution(High) 2.26
    Resolution(Low) 2.34
    Percent Possible(All) 80.4
    R Merge I(Observed) 0.261
    Redundancy 3.3
    Number Unique Reflections(All) 1464
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.26
    Resolution(Low) 34.061
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 17331
    Number of Reflections(Observed) 17331
    Number of Reflections(R-Free) 889
    Percent Reflections(Observed) 92.24
    R-Factor(Observed) 0.2023
    R-Work 0.1987
    R-Free 0.2696
    R-Free Selection Details random
     
    Temperature Factor Modeling
    Mean Isotropic B Value 29.9829
    Anisotropic B[1][1] 0.8599
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 3.3136
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -4.1736
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.2602
    Shell Resolution(Low) 2.4018
    Number of Reflections(R-Free) 116
    Number of Reflections(R-Work) 2058
    R-Factor(R-Work) 0.296
    R-Factor(R-Free) 0.3927
    Percent Reflections(Observed) 71.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.4018
    Shell Resolution(Low) 2.5871
    Number of Reflections(R-Free) 160
    Number of Reflections(R-Work) 2775
    R-Factor(R-Work) 0.2341
    R-Factor(R-Free) 0.3282
    Percent Reflections(Observed) 96.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.5871
    Shell Resolution(Low) 2.8474
    Number of Reflections(R-Free) 140
    Number of Reflections(R-Work) 2827
    R-Factor(R-Work) 0.2074
    R-Factor(R-Free) 0.2806
    Percent Reflections(Observed) 97.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.8474
    Shell Resolution(Low) 3.2591
    Number of Reflections(R-Free) 150
    Number of Reflections(R-Work) 2899
    R-Factor(R-Work) 0.2104
    R-Factor(R-Free) 0.265
    Percent Reflections(Observed) 98.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.2591
    Shell Resolution(Low) 4.105
    Number of Reflections(R-Free) 172
    Number of Reflections(R-Work) 2747
    R-Factor(R-Work) 0.1967
    R-Factor(R-Free) 0.2721
    Percent Reflections(Observed) 92.0
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 4.105
    Shell Resolution(Low) 34.0652
    Number of Reflections(R-Free) 151
    Number of Reflections(R-Work) 3136
    R-Factor(R-Work) 0.1591
    R-Factor(R-Free) 0.2118
    Percent Reflections(Observed) 99.0
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    f_dihedral_angle_d 10.712
    f_plane_restr 0.002
    f_chiral_restr 0.045
    f_angle_d 0.604
    f_bond_d 0.003
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2960
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 297
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL
    Structure Solution phaser
    Structure Refinement PHENIX (phenix.refine: 1.6.4_486)
     
    Software
    data extraction pdb_extract version: 3.10
    refinement phenix
    data processing HKL