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X-RAY DIFFRACTION
Materials and Methods page
4LDX
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 8.5
    Temperature 293.0
    Details 100 nL complex (4 mg/mL ARF1) and 100 nL crystallization buffer (10% PEG 20K, Glycine pH 8.5, 7.5% propanediol), VAPOR DIFFUSION, SITTING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 43.52 α = 90
    b = 105.19 β = 98.14
    c = 127.91 γ = 90
     
    Space Group
    Space Group Name:    P 1 21 1
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 210
    Collection Date 2011-09-08
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type ESRF BEAMLINE ID14-1
    Wavelength List 0.9334
    Site ESRF
    Beamline ID14-1
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 2.9
    Resolution(Low) 35
    Number Reflections(Observed) 25033
    Percent Possible(Observed) 98.7
    R Merge I(Observed) 0.16
    B(Isotropic) From Wilson Plot 55.0
    Redundancy 2.6
     
    High Resolution Shell Details
    Resolution(High) 2.9
    Resolution(Low) 3.06
    Percent Possible(All) 98.8
    R Merge I(Observed) 0.634
    Mean I Over Sigma(Observed) 1.7
    Redundancy 2.6
    Number Unique Reflections(All) 3622
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 2.9
    Resolution(Low) 33.81
    Number of Reflections(Observed) 23815
    Number of Reflections(R-Free) 1203
    Percent Reflections(Observed) 98.41
    R-Factor(Observed) 0.21626
    R-Work 0.21413
    R-Free 0.25932
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 47.427
    Anisotropic B[1][1] -2.58
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 1.21
    Anisotropic B[2][2] 3.16
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.73
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 2.9
    Shell Resolution(Low) 2.975
    Number of Reflections(R-Free) 88
    Number of Reflections(R-Work) 1736
    R-Factor(R-Work) 0.358
    R-Factor(R-Free) 0.394
    Percent Reflections(Observed) 98.7
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_long_range_B_other 5.948
    r_long_range_B_refined 5.949
    r_scangle_other 3.271
    r_scbond_other 1.892
    r_scbond_it 1.892
    r_mcangle_other 3.917
    r_mcangle_it 3.918
    r_mcbond_other 2.245
    r_mcbond_it 2.246
    r_gen_planes_other 0.004
    r_gen_planes_refined 0.007
    r_chiral_restr 0.076
    r_dihedral_angle_4_deg 16.783
    r_dihedral_angle_3_deg 19.479
    r_dihedral_angle_2_deg 35.633
    r_dihedral_angle_1_deg 6.969
    r_angle_other_deg 1.146
    r_angle_refined_deg 1.502
    r_bond_other_d 0.004
    r_bond_refined_d 0.011
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 5386
    Nucleic Acid Atoms 855
    Heterogen Atoms 0
    Solvent Atoms 33
     
     
  •   Software and Computing Hide
    Computing
    Data Collection MXCube
    Data Reduction (intensity integration) MOSFLM
    Data Reduction (data scaling) SCALA
    Structure Refinement REFMAC 5.7.0032
     
    Software
    refinement REFMAC version: 5.7.0032
    data collection MXCube