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An Information Portal to 105097 Biological Macromolecular Structures

X-RAY DIFFRACTION
Materials and Methods page
1XWS
  •   Crystallization Hide
    Crystallization Experiments
    Method VAPOR DIFFUSION, SITTING DROP
    pH 6.5
    Temperature 277.0
    Details Na2SO4, Bis-Tris propane, PEG3350, Ethylene Glycol, DMSO, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
     
  •   Crystal Data Hide
    Unit Cell
    Length    (Å) Angle    (°)
    a = 99.55 α = 90
    b = 99.55 β = 90
    c = 80.06 γ = 120
     
    Space Group
    Space Group Name:    P 65
     
     
  •   Diffraction Hide
    Diffraction Experiment
    Diffrn ID 1
    Data Collection Temperature 100
     
    Diffraction Detector
    Detector IMAGE PLATE
    Type RIGAKU RAXIS HTC
    Details Multi-layer VariMax HR
    Collection Date 2004-10-21
     
    Diffraction Radiation
    Monochromator Copper K-alpha
    Diffraction Protocol SINGLE WAVELENGTH
     
    Diffraction Source
    Source ROTATING ANODE
    Type RIGAKU FR-E
    Wavelength List 1.5418
     
     
  •   Refinement Data Hide
    Reflection Details
    Observed Criterion Sigma (F) 0.0
    Observed Criterion Sigma(I) 0.0
    Resolution(High) 1.8
    Resolution(Low) 86.07
    Number Reflections(All) 41697
    Number Reflections(Observed) 41578
    Percent Possible(Observed) 99.5
    R Merge I(Observed) 0.068
    B(Isotropic) From Wilson Plot 30.1
    Redundancy 6.3
     
    High Resolution Shell Details
    Resolution(High) 1.8
    Resolution(Low) 1.9
    Percent Possible(All) 98.2
    R Merge I(Observed) 0.781
    Mean I Over Sigma(Observed) 1.5
    R-Sym I(Observed) 0.781
    Redundancy 4.1
    Number Unique Reflections(All) 5939
     
     
  •   Refinement Hide
    Refinement Statistics
    Structure Solution Method MOLECULAR REPLACEMENT
    reflnsShellList 1.8
    Resolution(Low) 58.67
    Cut-off Sigma(I) 0.0
    Cut-off Sigma(F) 0.0
    Number of Reflections(all) 47251
    Number of Reflections(Observed) 39589
    Number of Reflections(R-Free) 2136
    Percent Reflections(Observed) 58.67
    R-Factor(All) 0.18164
    R-Factor(Observed) 0.18164
    R-Work 0.17999
    R-Free 0.21336
    R-Free Selection Details RANDOM
     
    Temperature Factor Modeling
    Mean Isotropic B Value 36.881
    Anisotropic B[1][1] 0.01
    Anisotropic B[1][2] 0.01
    Anisotropic B[1][3] 0.0
    Anisotropic B[2][2] 0.01
    Anisotropic B[2][3] 0.0
    Anisotropic B[3][3] -0.02
     
    Resolution Shells
    Refinement method X-RAY DIFFRACTION
    Shell Resolution(High) 1.8
    Shell Resolution(Low) 1.847
    Number of Reflections(R-Free) 168
    Number of Reflections(R-Work) 2909
    R-Factor(R-Work) 0.28
    R-Factor(R-Free) 0.322
    Percent Reflections(Observed) 99.26
     
    RMS Deviations
    Parameter Type Deviation from Ideal
    r_scangle_it 4.094
    r_scbond_it 2.586
    r_mcangle_it 1.648
    r_nbd_refined 0.201
    r_gen_planes_refined 0.007
    r_chiral_restr 0.112
    r_dihedral_angle_4_deg 18.091
    r_dihedral_angle_3_deg 13.182
    r_dihedral_angle_2_deg 34.6
    r_dihedral_angle_1_deg 5.769
    r_angle_refined_deg 1.914
    r_bond_refined_d 0.018
    r_nbtor_refined 0.306
    r_xyhbond_nbd_refined 0.16
    r_symmetry_vdw_refined 0.108
    r_symmetry_hbond_refined 0.173
    r_mcbond_it 1.026
     
    Number of Non-Hydrogen Atoms Used in Refinement
    Protein Atoms 2213
    Nucleic Acid Atoms 0
    Heterogen Atoms 36
    Solvent Atoms 242
     
     
  •   Software and Computing Hide
    Computing
    Data Reduction (intensity integration) CRYSTALCLEAR (MSC/RIGAKU)
    Data Reduction (data scaling) CRYSTALCLEAR (MSC/RIGAKU)
    Structure Solution PHASER
    Structure Refinement REFMAC 5.2.0005
     
    Software
    refinement REFMAC version: 5.2.0005