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X-RAY DIFFRACTION
Materials and Methods page
4DI8
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 8.5
    Temperature 298.0
    Details 30% peg 4000, 0.1 M Tris HCl pH 8.5, 0.2 M Na-acetate, VAPOR DIFFUSION, SITTING DROP, temperature 298K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 74.35 α = 90
    b = 52.13 β = 93.73
    c = 76.54 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 315
    Collection Date 2010-09-23
     
    Diffraction Radiation
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X29A
    Wavelength List 1.075
    Site NSLS
    Beamline X29A
     
     
  •   Refinement Data Hide
    Reflection Details
    Resolution(High) 1.81
    Resolution(Low) 50
    Number Reflections(Observed) 53516
    Percent Possible(Observed) 99.8
    R Merge I(Observed) 0.073
    Redundancy 3.6
     
    High Resolution Shell Details
    Resolution(High) 1.81
    Resolution(Low) 1.84
    Percent Possible(All) 98.7
    R Merge I(Observed) 0.332
    Redundancy 3.5
    Number Unique Reflections(All) 2592
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.81
    Resolution(Low) 19.8
    Cut-off Sigma(F) 0.0
    Number of Reflections(Observed) 53460
    Number of Reflections(R-Free) 2718
    Percent Reflections(Observed) 99.8
    R-Factor(Observed) 0.1582
    R-Work 0.1566
    R-Free 0.1868
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 17.2451
    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) 1.81
    Shell Resolution(Low) 1.857
    Number of Reflections(R-Free) 187
    Number of Reflections(R-Work) 3692
    R-Factor(R-Work) 0.213
    R-Factor(R-Free) 0.286
    Percent Reflections(Observed) 99.23
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 0.885
    r_scbond_it 4.844
    r_mcangle_it 2.278
    r_mcbond_it 0.681
    r_gen_planes_refined 0.006
    r_chiral_restr 0.086
    r_dihedral_angle_4_deg 18.243
    r_dihedral_angle_3_deg 12.17
    r_dihedral_angle_2_deg 33.434
    r_dihedral_angle_1_deg 5.802
    r_angle_refined_deg 1.231
    r_bond_refined_d 0.01
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 4620
    Nucleic Acid Atoms 0
    Heterogen Atoms 64
    Solvent Atoms 675
     
     
  •   Software and Computing Hide
    Computing
    Data Collection CBASS
    Data Reduction (intensity integration) HKL-3000
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHASER
    Structure Refinement REFMAC 5.5.0109
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5
    molecular replacement Phaser version: 2.1.4
    data reduction SCALEPACK