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X-RAY DIFFRACTION
Materials and Methods page
3VSY
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, HANGING DROP
    pH 7
    Temperature 293.0
    Details AMMONIUM SULPHATE 1.4M, 2-PROPANOL 5-7%, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 35.56 α = 90
    b = 73.35 β = 90
    c = 95.55 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
    Details mirrors
    Collection Date 2011-02-07
     
    Diffraction Radiation
    Monochromator Numerical link type Si(111) double crystal monochromator
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source SYNCHROTRON
    Type PHOTON FACTORY BEAMLINE AR-NW12A
    Wavelength List 1.0000
    Site PHOTON FACTORY
    Beamline AR-NW12A
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) -3.0
    Resolution(High) 1.5
    Resolution(Low) 58.18
    Number Reflections(All) 41000
    Number Reflections(Observed) 40264
    Percent Possible(Observed) 98.2
    R Merge I(Observed) 0.058
    Redundancy 6.9
     
    High Resolution Shell Details
    Resolution(High) 1.5
    Resolution(Low) 1.55
    Percent Possible(All) 84.0
    R Merge I(Observed) 0.49
    Mean I Over Sigma(Observed) 2.7
    Redundancy 4.8
    Number Unique Reflections(All) 3395
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.5
    Resolution(Low) 50.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 41000
    Number of Reflections(Observed) 40065
    Number of Reflections(R-Free) 1605
    Percent Reflections(Observed) 97.72
    R-Factor(All) 0.1523
    R-Factor(Observed) 0.1523
    R-Work 0.1503
    R-Free 0.2017
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 26.8173
    Anisotropic B[1][1] 2.14
    Anisotropic B[1][2] 0.0
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] -0.12
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -2.02
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.499
    Shell Resolution(Low) 1.538
    Number of Reflections(R-Free) 89
    Number of Reflections(R-Work) 2232
    R-Factor(R-Work) 0.202
    R-Factor(R-Free) 0.262
    Percent Reflections(Observed) 81.18
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_sphericity_bonded 15.258
    r_sphericity_free 30.884
    r_rigid_bond_restr 4.607
    r_gen_planes_refined 0.009
    r_chiral_restr 0.117
    r_dihedral_angle_4_deg 16.594
    r_dihedral_angle_3_deg 13.795
    r_dihedral_angle_2_deg 34.092
    r_dihedral_angle_1_deg 5.695
    r_angle_refined_deg 1.583
    r_bond_refined_d 0.015
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 1920
    Nucleic Acid Atoms 0
    Heterogen Atoms 10
    Solvent Atoms 250
     
     
  •   Software and Computing Hide
    Computing
    Data Collection UGUI
    Data Reduction (intensity integration) HKL-2000
    Data Reduction (data scaling) HKL-2000
    Structure Solution PHASER
    Structure Refinement REFMAC 5.6.0117
     
    Software
    data extraction pdb_extract version: 3.11
    refinement REFMAC5
    molecular replacement Phaser version: 2.1.4
    data reduction HKL