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X-RAY DIFFRACTION
Materials and Methods page
4GXP
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 7
    Temperature 300.0
    Details 20% polyethylene glycol 3350, 0.4M sodium malonate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 300K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 115.38 α = 90
    b = 115.38 β = 90
    c = 282.54 γ = 120
     
    Space Group
    Space Group Name:    P 31 1 2
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector PIXEL
    Type DECTRIS PILATUS 6M
    Collection Date 2012-04-05
     
    Diffraction Radiation
    Monochromator Liquid nitrogen cooled double crystal
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type SSRL BEAMLINE BL12-2
    Wavelength List 0.97950
    Site SSRL
    Beamline BL12-2
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 3
    Resolution(Low) 37.43
    Number Reflections(All) 43376
    Number Reflections(Observed) 43376
    Percent Possible(Observed) 99.6
    Redundancy 4.9
     
    High Resolution Shell Details
    Resolution(High) 3.0
    Resolution(Low) 3.16
    Percent Possible(All) 99.6
    R Merge I(Observed) 0.381
    Mean I Over Sigma(Observed) 2.0
    R-Sym I(Observed) 0.381
    Redundancy 4.8
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 3.0
    Resolution(Low) 37.43
    Number of Reflections(all) 43315
    Number of Reflections(Observed) 41124
    Number of Reflections(R-Free) 2188
    Percent Reflections(Observed) 99.47
    R-Factor(Observed) 0.24164
    R-Work 0.2389
    R-Free 0.29377
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 130.915
    Anisotropic B[1][1] 0.49
    Anisotropic B[1][2] 0.25
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.49
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.74
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 3.0
    Shell Resolution(Low) 3.077
    Number of Reflections(R-Free) 165
    Number of Reflections(R-Work) 2841
    R-Factor(R-Work) 0.324
    R-Factor(R-Free) 0.362
    Percent Reflections(Observed) 99.21
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.008
    r_chiral_restr 0.124
    r_dihedral_angle_4_deg 22.029
    r_dihedral_angle_3_deg 20.927
    r_dihedral_angle_2_deg 37.352
    r_dihedral_angle_1_deg 7.708
    r_angle_refined_deg 1.732
    r_bond_refined_d 0.014
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 9867
    Nucleic Acid Atoms 0
    Heterogen Atoms 0
    Solvent Atoms 2
     
     
  •   Software and Computing Hide
    Computing
    Data Collection Bluice
    Data Reduction (intensity integration) XSCALE
    Data Reduction (data scaling) SCALA
    Structure Solution Molrep (CCP4 6.2)
    Structure Refinement REFMAC 5.6.0117
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5 version: 5.6.0117
    data reduction SCALA version: 3.3.16