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X-RAY DIFFRACTION
Materials and Methods page
4GKR
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 277.0
    Details 0.1M MIB buffer, 25% PEG1500, 1mM TCEP, 1mM ATP, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 58.71 α = 90
    b = 84.07 β = 90
    c = 151.13 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 210
    Collection Date 2009-05-06
     
    Diffraction Radiation
    Monochromator Horizontal focusing Si (111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type CHESS BEAMLINE A1
    Wavelength List 0.917
    Site CHESS
    Beamline A1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 2.69
    Resolution(Low) 50
    Number Reflections(All) 21478
    Number Reflections(Observed) 20662
    Percent Possible(Observed) 96.2
    R Merge I(Observed) 0.076
    Redundancy 11.7
     
    High Resolution Shell Details
    Resolution(High) 2.69
    Resolution(Low) 2.8
    Percent Possible(All) 91.2
    R Merge I(Observed) 0.639
    Redundancy 10.7
    Number Unique Reflections(All) 1944
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.69
    Resolution(Low) 20.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 21478
    Number of Reflections(Observed) 20610
    Number of Reflections(R-Free) 1058
    Percent Reflections(Observed) 95.78
    R-Factor(All) 0.2128
    R-Factor(Observed) 0.2128
    R-Work 0.2104
    R-Free 0.2568
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 49.4792
    Anisotropic B[1][1] -1.71
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.79
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] 2.5
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.69
    Shell Resolution(Low) 2.757
    Number of Reflections(R-Free) 66
    Number of Reflections(R-Work) 1125
    R-Factor(R-Work) 0.325
    R-Factor(R-Free) 0.38
    Percent Reflections(Observed) 84.71
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_gen_planes_refined 0.005
    r_chiral_restr 0.088
    r_dihedral_angle_4_deg 15.421
    r_dihedral_angle_3_deg 17.143
    r_dihedral_angle_2_deg 37.427
    r_dihedral_angle_1_deg 5.995
    r_angle_refined_deg 1.359
    r_bond_refined_d 0.009
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4370
    Nucleic Acid Atoms 0
    Heterogen Atoms 64
    Solvent Atoms 52
     
     
  •   Software and Computing Hide
    Computing
    Data Collection ADX package
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution Phaser
    Structure Refinement REFMAC 5.6.0117
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    data reduction SCALEPACK