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X-RAY DIFFRACTION
Materials and Methods page
3QLZ
  •   Crystallization Hide
    Crystallization Experiments
    Method vapor diffusion, hanging drop
    pH 8.5
    Temperature 277.0
    Details PEG 4000, MgCl2, Tris, pH 8.5, vapor diffusion, hanging drop, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 42.61 α = 90
    b = 42.61 β = 90
    c = 230.24 γ = 90
     
    Space Group
    Space Group Name:    P 41
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector CCD
    Type ADSC QUANTUM 315
    Details mirrors
    Collection Date 2009-01-30
     
    Diffraction Radiation
    Monochromator SAGITALLY FOCUSED Si(111)
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type NSLS BEAMLINE X25
    Wavelength List 1.100
    Site NSLS
    Beamline X25
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 3.0
    Observed Criterion Sigma(I) 3.0
    Resolution(High) 1.94
    Resolution(Low) 50
    Number Reflections(All) 27675
    Number Reflections(Observed) 27675
    Percent Possible(Observed) 91.5
    R Merge I(Observed) 0.11
    Redundancy 4.1
     
    High Resolution Shell Details
    Resolution(High) 1.94
    Resolution(Low) 2.01
    Percent Possible(All) 94.1
    R Merge I(Observed) 0.319
    Redundancy 4.6
    Number Unique Reflections(All) 2826
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.94
    Resolution(Low) 28.78
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 27675
    Number of Reflections(Observed) 27675
    Number of Reflections(R-Free) 1400
    Percent Reflections(Observed) 91.87
    R-Factor(All) 0.2083
    R-Factor(Observed) 0.2083
    R-Work 0.2063
    R-Free 0.2446
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 24.9673
    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) 1.94
    Shell Resolution(Low) 1.99
    Number of Reflections(R-Free) 110
    Number of Reflections(R-Work) 2004
    R-Factor(R-Work) 0.215
    R-Factor(R-Free) 0.273
    Percent Reflections(Observed) 97.28
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.083
    r_scbond_it 2.752
    r_mcangle_it 1.775
    r_mcbond_it 1.237
    r_symmetry_hbond_refined 0.18
    r_bond_refined_d 0.011
    r_angle_refined_deg 0.97
    r_dihedral_angle_1_deg 9.025
    r_dihedral_angle_2_deg 38.098
    r_dihedral_angle_3_deg 15.755
    r_dihedral_angle_4_deg 19.552
    r_chiral_restr 0.087
    r_gen_planes_refined 0.011
    r_nbd_refined 0.215
    r_nbtor_refined 0.315
    r_xyhbond_nbd_refined 0.137
    r_symmetry_vdw_refined 0.258
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 3692
    Nucleic Acid Atoms 0
    Heterogen Atoms 147
    Solvent Atoms 192
     
     
  •   Software and Computing Hide
    Computing
    Data Collection HKL-2000
    Data Reduction (intensity integration) DENZO
    Data Reduction (data scaling) SCALEPACK
    Structure Solution PHASER
    Structure Refinement REFMAC 5.1.19
     
    Software
    data extraction pdb_extract version: 3.10
    refinement REFMAC5 version: 5.2.0019
    molecular replacement Phaser
    data scaling SCALEPACK